forum@abinit.org
Subject: The ABINIT Users Mailing List ( CLOSED )
List archive
- From: Yu Chol Jun <yucj@ghi.rwth-aachen.de>
- To: Anglade Pierre-Matthieu <anglade@gmail.com>
- Cc: forum@abinit.org
- Subject: Re: [abinit-forum] Run time error in abinip compiled by mpich2
- Date: Sat, 11 Aug 2007 18:33:41 +0200
Hello,
thank you for your concern.
Anglade Pierre-Matthieu wrote:
Hi
It looks like this is a more difficult error. At least the error message is surprising for me. Because of Abinit's tests it really seldom happens that one find a bug in the code. In the same time it is very frequent to find compilers bugs that results in runtime errors. Anyway we need to have a more thorough look at what is happening.
Could you please send
- your input file in order to reproduce the calculation;
- the "config.log" file (in Abinit's root directory);
- complete compiler informations (editor+version);
I compiled abinit by using the following command
../configure FC=/home/cy849828/mpich2-install/bin/mpif77 --disable-stdin
,where mpif77 was created by compiler gfortran as follows
./configure --prefix=/home/cy849828/mpich2-install | tee configure.log
,which I also attached.
Best wishes,
Chol Jun
#beta cristobalte (I4-2d) PAW
# 5 silicon layers + 6 vacuum layers
# Relaxation
optcell 0
ionmov 2
tolmxf 5.0d-4
toldff 1.0d-5
ntime 200
prtgeo 1
prtden 0
prteig 0
prtwf 0
natfix 20
iatfix 26 25 24 23 22 21 20 19 18 17
44 43 42 41 40 39 38 37 36 35
# Common data
ecut 15.0
pawecutdg 40.0
kptopt 1
ngkpt 2 2 1
nshiftk 1
shiftk 0.0 0.0 0.0
nstep 50
diemac 8.0
ixc 15
pawovlp -1
acell 9.5676731734 9.5676731734 13.768190489
rprim 2.0 0.0 0.0
0.0 1.0 0.0
0.0 0.0 3.5
chkprim 0
ntypat 4
znucl 14 8 1 6
natom 44
typat 4 4 2 2 2 2 3 3
3 3 2 2 1
2 2 1
2 2 1
2 2 1
2 2 3 3
3 3 2 2 1
2 2 1
2 2 1
2 2 1
2 2 3 3
xcart
3.7000000000 4.1713080905 32.5656876060
3.7000000000 1.0968270491 32.5656876060
3.7000000000 5.2281351396 30.5000000000
3.7000000000 0.0400000000 30.5000000000
3.7000000000 5.5760337575 34.7282672684
3.7000000000 -0.3078986179 34.7282672684
3.7000000000 4.4685101671 36.2424530675
3.7000000000 0.7996249725 36.2424530675
3.7074772093E+00 3.6959823759E-02 2.8508064443E+01
8.4950542427E+00 7.6946493872E+00 2.5787766593E+01
3.7074772093E+00 3.6959823759E-02 2.6808064443E+01
8.3159384097E+00 9.0393795751E+00 2.4492551231E+01
5.3211373422E+00 3.0660221035E-01 2.4028609506E+01
3.7413915042E+00 8.0066771660E+00 2.2048983587E+01
5.4418231370E+00 3.2775034244E+00 2.3044018453E+01
4.5665518207E+00 5.2468759572E+00 2.0741193604E+01
6.9143269160E+00 5.8960198937E+00 1.8766259186E+01
2.1173057769E+00 3.9291351484E+00 1.9276080563E+01
-1.2670645575E-01 4.8213516210E+00 1.7246263771E+01
8.4908998371E+00 2.3332098817E+00 1.5569661429E+01
1.0867190051E+00 7.1372507857E+00 1.5486678310E+01
8.2490374032E-03 -1.3700443792E-02 1.3761597061E+01
2.6188119806E+00 9.5760542280E-01 1.2171171246E+01
7.4235252700E+00 8.5620298355E+00 1.1709044405E+01
2.1373953688E+00 2.2365131940E+00 1.0890982150E+01
5.7059186979E+00 9.3343189602E+00 1.1973763896E+01
13.2751503827E+00 0.0369598238 2.8508064443E+01
18.0627274161E+00 7.6946493872E+00 2.5787766593E+01
13.2751503827E+00 3.6959823759E-02 2.6808064443E+01
17.8836115831E+00 9.0393795751E+00 2.4492551231E+01
14.8888105156E+00 3.0660221035E-01 2.4028609506E+01
13.3090646776E+00 8.0066771660E+00 2.2048983587E+01
15.0094963104E+00 3.2775034244E+00 2.3044018453E+01
14.1342249941E+00 5.2468759572E+00 2.0741193604E+01
16.4820000894E+00 5.8960198937E+00 1.8766259186E+01
11.6849789503E+00 3.9291351484E+00 1.9276080563E+01
9.44096671765 4.8213516210E+00 1.7246263771E+01
18.0585730105E+00 2.3332098817E+00 1.5569661429E+01
10.6543921785E+00 7.1372507857E+00 1.5486678310E+01
9.5759222108032 -1.3700443792E-02 1.3761597061E+01
12.1864851540E+00 9.5760542280E-01 1.2171171246E+01
16.9911984434E+00 8.5620298355E+00 1.1709044405E+01
11.7050685422E+00 2.2365131940E+00 1.0890982150E+01
15.2735918713E+00 9.3343189602E+00 1.1973763896E+01
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by ABINIT configure 5.3.4, which was
generated by GNU Autoconf 2.59. Invocation command line was
$ ../configure --prefix=/home/cy849828/bin FC=/home/cy849828/mpich2-install/bin/mpif77 --disable-stdin
## --------- ##
## Platform. ##
## --------- ##
hostname = linuxoc68.rz.RWTH-Aachen.DE
uname -m = x86_64
uname -r = 2.6.9-42.0.10.ELlargesmp
uname -s = Linux
uname -v = #1 SMP Tue Feb 27 12:54:30 EST 2007
/usr/bin/uname -p = x86_64
/bin/uname -X = unknown
/bin/arch = x86_64
/usr/bin/arch -k = x86_64
/usr/convex/getsysinfo = unknown
hostinfo = unknown
/bin/machine = unknown
/usr/bin/oslevel = unknown
/bin/universe = unknown
PATH: /home/cy849828/mpich2-install/bin
PATH: /home/cy849828/bin
PATH: /usr/local_host/sbin
PATH: /usr/local_host/bin
PATH: /usr/local_rwth/sbin
PATH: /usr/local_rwth/bin
PATH: /usr/bin
PATH: /usr/sbin
PATH: /sbin
PATH: /usr/dt/bin
PATH: /usr/bin/X11
PATH: /usr/java/bin
PATH: /usr/lpp/mmfs/bin
PATH: /usr/local/bin
PATH: /usr/local/sbin
PATH: .
## ----------- ##
## Core tests. ##
## ----------- ##
configure:1489: checking build system type
configure:1507: result: x86_64-unknown-linux-gnu
configure:1515: checking host system type
configure:1529: result: x86_64-unknown-linux-gnu
configure:1537: checking target system type
configure:1551: result: x86_64-unknown-linux-gnu
configure:1579: checking for a BSD-compatible install
configure:1634: result: /usr/local_rwth/bin/ginstall -c
configure:1645: checking whether build environment is sane
configure:1688: result: yes
configure:1753: checking for gawk
configure:1769: found /usr/bin/gawk
configure:1779: result: gawk
configure:1789: checking whether make sets $(MAKE)
configure:1809: result: yes
configure:3461: checking consistency of MPI options
configure:3491: |---> all OK
configure:3494:
configure:3503: checking consistency of external library options
configure:3572: |---> all OK
configure:3575:
configure:3604: checking whether make sets $(MAKE)
configure:3624: result: yes
configure:3646: checking for a BSD-compatible install
configure:3701: result: /usr/local_rwth/bin/ginstall -c
configure:3712: checking whether ln -s works
configure:3716: result: yes
configure:3727: checking for sh
configure:3745: found /usr/bin/sh
configure:3758: result: /usr/bin/sh
configure:3767: checking for perl
configure:3785: found /usr/local_rwth/bin/perl
configure:3798: result: /usr/local_rwth/bin/perl
configure:3807: checking for python
configure:3825: found /usr/bin/python
configure:3838: result: /usr/bin/python
configure:3847: checking for rm
configure:3865: found /usr/bin/rm
configure:3878: result: /usr/bin/rm
configure:3887: checking for mv
configure:3905: found /usr/bin/mv
configure:3918: result: /usr/bin/mv
configure:3927: checking for tar
configure:3945: found /usr/bin/tar
configure:3958: result: /usr/bin/tar
configure:3967: checking for markdown
configure:3998: result: /usr/bin/markdown
configure:4007: checking for latex
configure:4025: found /usr/bin/latex
configure:4038: result: /usr/bin/latex
configure:4047: checking for dvips
configure:4065: found /usr/bin/dvips
configure:4078: result: /usr/bin/dvips
configure:4087: checking for dvipdf
configure:4105: found /usr/bin/dvipdf
configure:4118: result: /usr/bin/dvipdf
configure:4127: checking for ps2pdf
configure:4145: found /usr/bin/ps2pdf
configure:4158: result: /usr/bin/ps2pdf
configure:4167: checking for egrep
configure:4177: result: grep -E
configure:4184: using internal version of MarkDown
configure:4281: checking for ranlib
configure:4297: found /usr/bin/ranlib
configure:4308: result: ranlib
configure:4320: checking for a sed that does not truncate output
configure:4374: result: /usr/local_rwth/bin/gsed
configure:4389: checking for style of include used by make
configure:4417: result: GNU
configure:4488: checking for gcc
configure:4514: result: gcc
configure:4758: checking for C compiler version
configure:4761: gcc --version </dev/null >&5
gcc (GCC) 3.4.6 20060404 (Red Hat 3.4.6-8)
Copyright (C) 2006 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:4764: $? = 0
configure:4766: gcc -v </dev/null >&5
Reading specs from /usr/lib/gcc/x86_64-redhat-linux/3.4.6/specs
Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --enable-shared --enable-threads=posix --disable-checking --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-java-awt=gtk --host=x86_64-redhat-linux
Thread model: posix
gcc version 3.4.6 20060404 (Red Hat 3.4.6-8)
configure:4769: $? = 0
configure:4771: gcc -V </dev/null >&5
gcc: `-V' option must have argument
configure:4774: $? = 1
configure:4797: checking for C compiler default output file name
configure:4800: gcc conftest.c >&5
configure:4803: $? = 0
configure:4849: result: a.out
configure:4854: checking whether the C compiler works
configure:4860: ./a.out
configure:4863: $? = 0
configure:4880: result: yes
configure:4887: checking whether we are cross compiling
configure:4889: result: no
configure:4892: checking for suffix of executables
configure:4894: gcc -o conftest conftest.c >&5
configure:4897: $? = 0
configure:4922: result:
configure:4928: checking for suffix of object files
configure:4949: gcc -c conftest.c >&5
configure:4952: $? = 0
configure:4974: result: o
configure:4978: checking whether we are using the GNU C compiler
configure:5002: gcc -c conftest.c >&5
configure:5008: $? = 0
configure:5012: test -z
|| test ! -s conftest.err
configure:5015: $? = 0
configure:5018: test -s conftest.o
configure:5021: $? = 0
configure:5034: result: yes
configure:5040: checking whether gcc accepts -g
configure:5061: gcc -c -g conftest.c >&5
configure:5067: $? = 0
configure:5071: test -z
|| test ! -s conftest.err
configure:5074: $? = 0
configure:5077: test -s conftest.o
configure:5080: $? = 0
configure:5091: result: yes
configure:5108: checking for gcc option to accept ANSI C
configure:5178: gcc -c conftest.c >&5
configure:5184: $? = 0
configure:5188: test -z
|| test ! -s conftest.err
configure:5191: $? = 0
configure:5194: test -s conftest.o
configure:5197: $? = 0
configure:5215: result: none needed
configure:5233: gcc -c conftest.c >&5
conftest.c:2: error: syntax error before "me"
configure:5239: $? = 1
configure: failed program was:
| #ifndef __cplusplus
| choke me
| #endif
configure:5374: checking dependency style of gcc
configure:5464: result: gcc3
configure:5492: checking for ld used by gcc
configure:5559: result: /usr/bin/ld
configure:5568: checking if the linker (/usr/bin/ld) is GNU ld
configure:5583: result: yes
configure:5590: checking for ar
configure:5608: found /usr/bin/ar
configure:5621: result: /usr/bin/ar
configure:5657: checking for sed
configure:5702: result: /usr/local_rwth/bin/gsed
configure:5742: checking how to run the C preprocessor
configure:5777: gcc -E conftest.c
configure:5783: $? = 0
configure:5815: gcc -E conftest.c
conftest.c:17:28: ac_nonexistent.h: No such file or directory
configure:5821: $? = 1
configure: failed program was:
| /* confdefs.h. */
|
| #define PACKAGE_NAME "ABINIT"
| #define PACKAGE_TARNAME "abinit"
| #define PACKAGE_VERSION "5.3.4"
| #define PACKAGE_STRING "ABINIT 5.3.4"
| #define PACKAGE_BUGREPORT "pouillon@pcpm.ucl.ac.be"
| #define PACKAGE "abinit"
| #define VERSION "5.3.4"
| #define ABINIT_VERSION "5.3.4"
| #define ABINIT_VERSION_MAJOR "5"
| #define ABINIT_VERSION_MINOR "3"
| #define ABINIT_VERSION_MICRO "4"
| #define ABINIT_VERSION_BUILD "20070811"
| #define ABINIT_VERSION_BASE "5.3"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:5860: result: gcc -E
configure:5884: gcc -E conftest.c
configure:5890: $? = 0
configure:5922: gcc -E conftest.c
conftest.c:17:28: ac_nonexistent.h: No such file or directory
configure:5928: $? = 1
configure: failed program was:
| /* confdefs.h. */
|
| #define PACKAGE_NAME "ABINIT"
| #define PACKAGE_TARNAME "abinit"
| #define PACKAGE_VERSION "5.3.4"
| #define PACKAGE_STRING "ABINIT 5.3.4"
| #define PACKAGE_BUGREPORT "pouillon@pcpm.ucl.ac.be"
| #define PACKAGE "abinit"
| #define VERSION "5.3.4"
| #define ABINIT_VERSION "5.3.4"
| #define ABINIT_VERSION_MAJOR "5"
| #define ABINIT_VERSION_MINOR "3"
| #define ABINIT_VERSION_MICRO "4"
| #define ABINIT_VERSION_BUILD "20070811"
| #define ABINIT_VERSION_BASE "5.3"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:5975: checking for the true C preprocessor
configure:6024: result: /lib/cpp
configure:6027: checking for C preprocessor options
configure:6040: result: -P -std=c89
configure:6135: checking for gcc
configure:6161: result: gcc
configure:6405: checking for C compiler version
configure:6408: gcc --version </dev/null >&5
gcc (GCC) 3.4.6 20060404 (Red Hat 3.4.6-8)
Copyright (C) 2006 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:6411: $? = 0
configure:6413: gcc -v </dev/null >&5
Reading specs from /usr/lib/gcc/x86_64-redhat-linux/3.4.6/specs
Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --enable-shared --enable-threads=posix --disable-checking --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-java-awt=gtk --host=x86_64-redhat-linux
Thread model: posix
gcc version 3.4.6 20060404 (Red Hat 3.4.6-8)
configure:6416: $? = 0
configure:6418: gcc -V </dev/null >&5
gcc: `-V' option must have argument
configure:6421: $? = 1
configure:6424: checking whether we are using the GNU C compiler
configure:6480: result: yes
configure:6486: checking whether gcc accepts -g
configure:6537: result: yes
configure:6554: checking for gcc option to accept ANSI C
configure:6661: result: none needed
configure:6679: gcc -c conftest.c >&5
conftest.c:2: error: syntax error before "me"
configure:6685: $? = 1
configure: failed program was:
| #ifndef __cplusplus
| choke me
| #endif
configure:6820: checking dependency style of gcc
configure:6910: result: gcc3
configure:6933: checking if we are using the GNU C compiler
configure:6957: result: yes
configure:7137: checking whether byte ordering is bigendian
configure:7164: gcc -c conftest.c >&5
configure:7170: $? = 0
configure:7174: test -z
|| test ! -s conftest.err
configure:7177: $? = 0
configure:7180: test -s conftest.o
configure:7183: $? = 0
configure:7207: gcc -c conftest.c >&5
conftest.c: In function `main':
conftest.c:25: error: `not' undeclared (first use in this function)
conftest.c:25: error: (Each undeclared identifier is reported only once
conftest.c:25: error: for each function it appears in.)
conftest.c:25: error: syntax error before "big"
configure:7213: $? = 1
configure: failed program was:
| /* confdefs.h. */
|
| #define PACKAGE_NAME "ABINIT"
| #define PACKAGE_TARNAME "abinit"
| #define PACKAGE_VERSION "5.3.4"
| #define PACKAGE_STRING "ABINIT 5.3.4"
| #define PACKAGE_BUGREPORT "pouillon@pcpm.ucl.ac.be"
| #define PACKAGE "abinit"
| #define VERSION "5.3.4"
| #define ABINIT_VERSION "5.3.4"
| #define ABINIT_VERSION_MAJOR "5"
| #define ABINIT_VERSION_MINOR "3"
| #define ABINIT_VERSION_MICRO "4"
| #define ABINIT_VERSION_BUILD "20070811"
| #define ABINIT_VERSION_BASE "5.3"
| #define GNU_CC 1
| /* end confdefs.h. */
| #include <sys/types.h>
| #include <sys/param.h>
|
| int
| main ()
| {
| #if BYTE_ORDER != BIG_ENDIAN
| not big endian
| #endif
|
| ;
| return 0;
| }
configure:7348: result: no
configure:7372: applying C compiler tricks (type: gnu, version: 3.4.6)
configure:7552: checking for C++ compiler version
configure:7555: g++ --version </dev/null >&5
g++ (GCC) 3.4.6 20060404 (Red Hat 3.4.6-8)
Copyright (C) 2006 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:7558: $? = 0
configure:7560: g++ -v </dev/null >&5
Reading specs from /usr/lib/gcc/x86_64-redhat-linux/3.4.6/specs
Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --enable-shared --enable-threads=posix --disable-checking --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-java-awt=gtk --host=x86_64-redhat-linux
Thread model: posix
gcc version 3.4.6 20060404 (Red Hat 3.4.6-8)
configure:7563: $? = 0
configure:7565: g++ -V </dev/null >&5
g++: `-V' option must have argument
configure:7568: $? = 1
configure:7571: checking whether we are using the GNU C++ compiler
configure:7595: g++ -c conftest.cc >&5
configure:7601: $? = 0
configure:7605: test -z
|| test ! -s conftest.err
configure:7608: $? = 0
configure:7611: test -s conftest.o
configure:7614: $? = 0
configure:7627: result: yes
configure:7633: checking whether g++ accepts -g
configure:7654: g++ -c -g conftest.cc >&5
configure:7660: $? = 0
configure:7664: test -z
|| test ! -s conftest.err
configure:7667: $? = 0
configure:7670: test -s conftest.o
configure:7673: $? = 0
configure:7684: result: yes
configure:7726: g++ -c conftest.cc >&5
configure:7732: $? = 0
configure:7736: test -z
|| test ! -s conftest.err
configure:7739: $? = 0
configure:7742: test -s conftest.o
configure:7745: $? = 0
configure:7771: g++ -c conftest.cc >&5
conftest.cc: In function `int main()':
conftest.cc:22: error: `exit' was not declared in this scope
configure:7777: $? = 1
configure: failed program was:
| /* confdefs.h. */
|
| #define PACKAGE_NAME "ABINIT"
| #define PACKAGE_TARNAME "abinit"
| #define PACKAGE_VERSION "5.3.4"
| #define PACKAGE_STRING "ABINIT 5.3.4"
| #define PACKAGE_BUGREPORT "pouillon@pcpm.ucl.ac.be"
| #define PACKAGE "abinit"
| #define VERSION "5.3.4"
| #define ABINIT_VERSION "5.3.4"
| #define ABINIT_VERSION_MAJOR "5"
| #define ABINIT_VERSION_MINOR "3"
| #define ABINIT_VERSION_MICRO "4"
| #define ABINIT_VERSION_BUILD "20070811"
| #define ABINIT_VERSION_BASE "5.3"
| #define GNU_CC 1
| /* end confdefs.h. */
|
| int
| main ()
| {
| exit (42);
| ;
| return 0;
| }
configure:7726: g++ -c conftest.cc >&5
configure:7732: $? = 0
configure:7736: test -z
|| test ! -s conftest.err
configure:7739: $? = 0
configure:7742: test -s conftest.o
configure:7745: $? = 0
configure:7771: g++ -c conftest.cc >&5
configure:7777: $? = 0
configure:7781: test -z
|| test ! -s conftest.err
configure:7784: $? = 0
configure:7787: test -s conftest.o
configure:7790: $? = 0
configure:7815: checking dependency style of g++
configure:7905: result: gcc3
configure:7928: checking if we are using the GNU C++ compiler
configure:7953: result: yes
configure:8134: applying C++ compiler tricks (type: gnu, version: 3.4.6)
configure:8308: checking for Fortran compiler version
configure:8311: /home/cy849828/mpich2-install/bin/mpif77 --version </dev/null >&5
GNU Fortran 95 (GCC) 4.1.0 20060515 (Red Hat 4.1.0-18)
Copyright (C) 2006 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:8314: $? = 0
configure:8316: /home/cy849828/mpich2-install/bin/mpif77 -v </dev/null >&5
mpif77 for 1.0.5
Driving: gfortran -v -I/home/cy849828/mpich2-install/include -L/home/cy849828/mpich2-install/lib -lmpich -lpthread -lrt -lgfortranbegin -lgfortran -lm -shared-libgcc
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 --with-gxx-include-dir=/usr/include/c++/3.4.3 --enable-libgcj-multifile --enable-languages=c,c++,java,f95 --enable-java-awt=gtk --disable-dssi --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 4.1.0 20060515 (Red Hat 4.1.0-18)
/usr/libexec/gcc/x86_64-redhat-linux/4.1.0/collect2 --eh-frame-hdr -m elf_x86_64 -dynamic-linker /lib64/ld-linux-x86-64.so.2 /usr/lib/gcc/x86_64-redhat-linux/4.1.0/../../../../lib64/crt1.o /usr/lib/gcc/x86_64-redhat-linux/4.1.0/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.1.0/crtbegin.o -L/home/cy849828/mpich2-install/lib -L/usr/lib/gcc/x86_64-redhat-linux/4.1.0 -L/usr/lib/gcc/x86_64-redhat-linux/4.1.0 -L/usr/lib/gcc/x86_64-redhat-linux/4.1.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -lmpich -lpthread -lrt -lgfortranbegin -lgfortran -lm -lgcc_s -lgcc -lc -lgcc_s -lgcc /usr/lib/gcc/x86_64-redhat-linux/4.1.0/crtend.o /usr/lib/gcc/x86_64-redhat-linux/4.1.0/../../../../lib64/crtn.o
/usr/lib/gcc/x86_64-redhat-linux/4.1.0/libgfortranbegin.a(fmain.o)(.text+0xa): In function `main':
: undefined reference to `MAIN__'
collect2: ld returned 1 exit status
configure:8319: $? = 1
configure:8321: /home/cy849828/mpich2-install/bin/mpif77 -V </dev/null >&5
gfortran: couldn't run 'x86_64-redhat-linux-gcc--I/home/cy849828/mpich2-install/include': No such file or directory
configure:8324: $? = 1
configure:8332: checking whether we are using the GNU Fortran compiler
configure:8346: /home/cy849828/mpich2-install/bin/mpif77 -c conftest.F >&5
configure:8352: $? = 0
configure:8356: test -z
|| test ! -s conftest.err
configure:8359: $? = 0
configure:8362: test -s conftest.o
configure:8365: $? = 0
configure:8378: result: yes
configure:8384: checking whether /home/cy849828/mpich2-install/bin/mpif77 accepts -g
configure:8396: /home/cy849828/mpich2-install/bin/mpif77 -c -g conftest.f >&5
configure:8402: $? = 0
configure:8406: test -z
|| test ! -s conftest.err
configure:8409: $? = 0
configure:8412: test -s conftest.o
configure:8415: $? = 0
configure:8427: result: yes
configure:8461: checking if we are using the G95 Fortran compiler
configure:8489: result: no
configure:8495: checking if we are using the Intel Fortran compiler
configure:8518: result: no
configure:8524: checking if we are using the GNU Fortran compiler
configure:8547: result: yes
configure:8844: applying Fortran compiler tricks (type: gnu, version: GNU)
configure:8957: checking whether the Fortran compiler accepts exit()
configure:8973: /home/cy849828/mpich2-install/bin/mpif77 -o conftest conftest.F90 >&5
configure:8979: $? = 0
configure:8983: test -z
|| test ! -s conftest.err
configure:8986: $? = 0
configure:8989: test -s conftest
configure:8992: $? = 0
configure:9017: result: yes
configure:9031: checking whether to activate Fortran interfaces
configure:9040: result: yes
configure:9044: checking whether to use C clock for timings
configure:9063: result: no
configure:9192: applying optimizations for gnu_fc/all/all
configure:9270: enabling per-directory Fortran optimizations
configure:10808: checking for a native MPI support
configure:10826: /home/cy849828/mpich2-install/bin/mpif77 -o conftest conftest.F90 >&5
configure:10832: $? = 0
configure:10836: test -z
|| test ! -s conftest.err
configure:10839: $? = 0
configure:10842: test -s conftest
configure:10845: $? = 0
configure:10865: checking for mpirun
configure:10883: found /home/cy849828/mpich2-install/bin/mpirun
configure:10895: result: /home/cy849828/mpich2-install/bin/mpirun
configure:10905: result: yes
configure:11206: checking whether to build parallel code
configure:11208: result: yes
configure:11212: checking if MPI is usable
configure:11214: result: yes
configure:11216: checking for MPI type
configure:11218: result: native
configure:11220: checking for MPI Fortran compiler
configure:11226: result: /home/cy849828/mpich2-install/bin/mpif77
configure:11229: checking for MPI CPPFLAGS
configure:11235: result: -DMPI=1
configure:11238: checking for MPI FCFLAGS
configure:11241: result: none
configure:11247: checking for MPI Fortran LDFLAGS
configure:11250: result: none
configure:11256: checking for MPI run script
configure:11262: result: /home/cy849828/mpich2-install/bin/mpirun
configure:11414: checking whether to use the BIGDFT library
configure:11416: result: no
configure:11449: checking whether to build the BIGDFT library
configure:11451: result: no
configure:11511: checking whether to use the LINALG library
configure:11513: result: yes
configure:11563: checking whether to build the LINALG library
configure:11565: result: yes
configure:11622: checking whether to use the NETCDF library
configure:11624: result: no
configure:11680: checking whether to build the NETCDF library
configure:11682: result: no
configure:11739: checking whether to use the ETSF_IO library
configure:11741: result: no
configure:11774: checking whether to build the ETSF_IO library
configure:11776: result: no
configure:11833: checking whether to use the ETSF_XC library
configure:11835: result: no
configure:11868: checking whether to build the ETSF_XC library
configure:11870: result: no
configure:11927: checking whether to use the XMLF90 library
configure:11929: result: no
configure:11962: checking whether to build the XMLF90 library
configure:11964: result: no
configure:11999: checking whether to use the FFTW library
configure:12001: result: no
configure:12301: creating ./config.status
## ---------------------- ##
## Running config.status. ##
## ---------------------- ##
This file was extended by ABINIT config.status 5.3.4, which was
generated by GNU Autoconf 2.59. Invocation command line was
CONFIG_FILES =
CONFIG_HEADERS =
CONFIG_LINKS =
CONFIG_COMMANDS =
$ ./config.status
on linuxoc68.rz.RWTH-Aachen.DE
config.status:1056: creating config.mk
config.status:1056: creating config.sh
config.status:1056: creating src/defs/defs_infos.F90
config.status:1056: creating tests/tests.env
config.status:1056: creating util/build/wrap-fc
config.status:1056: creating Makefile
config.status:1056: creating lib/Makefile
config.status:1056: creating src/Makefile
config.status:1056: creating lib/light/Makefile
config.status:1056: creating lib/macroav/Makefile
config.status:1056: creating lib/numeric/Makefile
config.status:1056: creating lib/numericf90/Makefile
config.status:1056: creating lib/linalg/Makefile
config.status:1056: creating lib/netcdf/Makefile
config.status:1056: creating lib/etsf_io/Makefile
config.status:1056: creating lib/etsf_xc/Makefile
config.status:1056: creating lib/xmlf90/Makefile
config.status:1056: creating src/defs/Makefile
config.status:1056: creating src/lib01fftnew/Makefile
config.status:1056: creating src/lib01cg/Makefile
config.status:1056: creating src/lib01hidempi/Makefile
config.status:1056: creating src/00basis/Makefile
config.status:1056: creating src/01manage_mpi/Makefile
config.status:1056: creating src/11util/Makefile
config.status:1056: creating src/11contract/Makefile
config.status:1056: creating src/12spacepar/Makefile
config.status:1056: creating src/12parser/Makefile
config.status:1056: creating src/12geometry/Makefile
config.status:1056: creating src/12ffts/Makefile
config.status:1056: creating src/12nlstrain/Makefile
config.status:1056: creating src/12poisson/Makefile
config.status:1056: creating src/13xml/Makefile
config.status:1056: creating src/13xc/Makefile
config.status:1056: creating src/13recipspace/Makefile
config.status:1056: creating src/13paw/Makefile
config.status:1056: creating src/13iovars/Makefile
config.status:1056: creating src/13nonlocal/Makefile
config.status:1056: creating src/13psp/Makefile
config.status:1056: creating src/13ionetcdf/Makefile
config.status:1056: creating src/13io_mpi/Makefile
config.status:1056: creating lib/bigdft/Makefile
config.status:1056: creating src/14wfs/Makefile
config.status:1056: creating src/14wvl_wfs/Makefile
config.status:1056: creating src/14iowfdenpot/Makefile
config.status:1056: creating src/14bader/Makefile
config.status:1056: creating src/14occeig/Makefile
config.status:1056: creating src/15common/Makefile
config.status:1056: creating src/15gw/Makefile
config.status:1056: creating src/15rsprc/Makefile
config.status:1056: creating src/16response/Makefile
config.status:1056: creating src/16geomoptim/Makefile
config.status:1056: creating src/17suscep/Makefile
config.status:1056: creating src/17lwf/Makefile
config.status:1056: creating src/17ddb/Makefile
config.status:1056: creating src/18seqpar/Makefile
config.status:1056: creating src/19cut3d/Makefile
config.status:1056: creating src/21paral_md/Makefile
config.status:1056: creating src/21drive/Makefile
config.status:1056: creating src/main/Makefile
config.status:1056: creating bin/Makefile
config.status:1056: creating doc/Makefile
config.status:1056: creating tests/Makefile
config.status:1056: creating vms/Makefile
config.status:1153: creating config.h
config.status:1447: executing depfiles commands
config.status:1447: executing build-exec commands
## ---------------- ##
## Cache variables. ##
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## Output variables. ##
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fcflags_opt_14wvl_wfs='-O2'
fcflags_opt_15common='-O2'
fcflags_opt_15gw='-O2'
fcflags_opt_15rsprc='-O2'
fcflags_opt_16geomoptim='-O2'
fcflags_opt_16response='-O2'
fcflags_opt_17ddb='-O2'
fcflags_opt_17lwf='-O2'
fcflags_opt_17suscep='-O2'
fcflags_opt_18seqpar='-O2'
fcflags_opt_19cut3d='-O2'
fcflags_opt_21drive='-O2'
fcflags_opt_21paral_md='-O2'
fcflags_opt_defs='-O2'
fcflags_opt_lib01cg='-O2'
fcflags_opt_lib01fftnew='-O2'
fcflags_opt_lib01hidempi='-O2'
fcflags_opt_light='-O2'
fcflags_opt_macroav='-O2'
fcflags_opt_main='-O2'
fcflags_opt_numeric='-O2'
fcflags_opt_numericf90='-O2'
fftw_include=''
fftw_ldflags=''
host='x86_64-unknown-linux-gnu'
host_alias=''
host_cpu='x86_64'
host_os='linux-gnu'
host_vendor='unknown'
includedir='${prefix}/include'
infodir='${prefix}/info'
install_sh='/home/cy849828/abinit-5.3.4/config/gnu/install-sh'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
light_include=''
linalg_include=''
linalg_ldflags='-L$(abinit_builddir)/lib/linalg -llinalg'
linalg_pkg_name='lapack-pre_abinit_3.2'
linalg_pkg_string='An old, robust, version of Lapack library (hacked for ABINIT by Yann Pouillon)'
linalg_tricks_bypass=''
localstatedir='${prefix}/var'
macroav_include=''
mandir='${prefix}/man'
mkdir_p='mkdir -p --'
mpi_native_run='/home/cy849828/mpich2-install/bin/mpirun'
mpi_type='native'
mpi_usable='yes'
netcdf_include=''
netcdf_ldflags=''
netcdf_pkg_name='netcdf-3.6.2'
netcdf_pkg_string='NetCDF 3.6.0-p1 (upstream release)'
numeric_include=''
numericf90_include=''
oldincludedir='/usr/include'
prefix='/home/cy849828/bin'
program_transform_name='s,x,x,'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
sysconfdir='${prefix}/etc'
target='x86_64-unknown-linux-gnu'
target_alias=''
target_cpu='x86_64'
target_os='linux-gnu'
target_vendor='unknown'
with_bigdft_include=''
with_bigdft_ldflags=''
with_cc_ldflags=''
with_cc_optflags=''
with_config_file=''
with_cppflags=''
with_cxx_ldflags=''
with_cxx_optflags=''
with_etsf_io_include=''
with_etsf_io_ldflags=''
with_etsf_xc_include=''
with_etsf_xc_ldflags=''
with_fc_ldflags=''
with_fc_optflags=''
with_fftw_ldflags=''
with_gnu_ld='yes'
with_linalg_ldflags=''
with_linalg_type=''
with_mpi_cc=''
with_mpi_cc_ldflags=''
with_mpi_cflags=''
with_mpi_cpp=''
with_mpi_cppflags=''
with_mpi_cxx=''
with_mpi_cxx_ldflags=''
with_mpi_cxxflags=''
with_mpi_fc=''
with_mpi_fc_ldflags=''
with_mpi_fcflags=''
with_mpi_prefix=''
with_mpi_run=''
with_netcdf_include=''
with_netcdf_ldflags=''
with_xmlf90_include=''
with_xmlf90_ldflags=''
xmlf90_include=''
xmlf90_ldflags=''
xmlf90_pkg_name='xmlf90-1.2g'
xmlf90_pkg_string='XML Fortran 90 library 1.2g (hacked for ABINIT by Yann Pouillon)'
## ----------- ##
## confdefs.h. ##
## ----------- ##
#define ABINIT_TARGET "x86_64_linux_gnu"
#define ABINIT_VERSION "5.3.4"
#define ABINIT_VERSION_BASE "5.3"
#define ABINIT_VERSION_BUILD "20070811"
#define ABINIT_VERSION_MAJOR "5"
#define ABINIT_VERSION_MICRO "4"
#define ABINIT_VERSION_MINOR "3"
#define FC_GNU 1
#define GNU_CC 1
#define GNU_CXX 1
#define HAVE_FORTRAN_EXIT 1
#define HAVE_FORTRAN_INTERFACES 1
#define HAVE_LINALG 1
#define PACKAGE "abinit"
#define PACKAGE_BUGREPORT "pouillon@pcpm.ucl.ac.be"
#define PACKAGE_NAME "ABINIT"
#define PACKAGE_STRING "ABINIT 5.3.4"
#define PACKAGE_TARNAME "abinit"
#define PACKAGE_VERSION "5.3.4"
#define READ_FROM_FILE 1
#define VERSION "5.3.4"
#endif
#ifdef __cplusplus
extern "C" void std::exit (int) throw (); using std::exit;
configure: exit 0
Configuring MPICH2 version 1.0.5 with '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' Running on system: Linux linuxoc68.rz.RWTH-Aachen.DE 2.6.9-42.0.10.ELlargesmp #1 SMP Tue Feb 27 12:54:30 EST 2007 x86_64 x86_64 x86_64 GNU/Linux Executing mpich2prereq in /home/cy849828/mpich2-1.0.5p4/src/mpid/ch3 with Executing mpich2prereq in /home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock sourcing /home/cy849828/mpich2-1.0.5p4/src/pm/mpd/mpich2prereq sourcing /home/cy849828/mpich2-1.0.5p4/src/pm/mpd/setup_pm checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 type of weak symbol support... pragma weak checking whether __attribute__ ((weak)) allowed... yes checking for multiple weak symbol support... yes checking whether we are using the GNU Fortran 77 compiler... yes checking whether gfortran accepts -g... yes checking how to get verbose linking output from gfortran... -v checking for Fortran libraries of gfortran... -L/usr/lib/gcc/x86_64-redhat-linux/4.1.0 -L/usr/lib/gcc/x86_64-redhat-linux/4.1.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -lgfortranbegin -lgfortran -lm -lgcc_s checking whether C can link with -L/usr/lib/gcc/x86_64-redhat-linux/4.1.0 -L/usr/lib/gcc/x86_64-redhat-linux/4.1.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -lgfortranbegin -lgfortran -lm -lgcc_s... yes checking for linker for Fortran main programs... Use Fortran to link programs checking for Fortran 77 name mangling... lower underscore checking what libraries are needed to link Fortran programs with C routines that use stdio... none checking for f90... f90 checking that f works as the extension for Fortran 90 program... no checking for extension for Fortran 90 programs... unknown! checking whether we are using the GNU Fortran 90 compiler... no checking whether f90 accepts -g... no checking for extension for Fortran 90 programs... unknown! checking whether the Fortran 90 compiler (f90 ) works... no checking whether the Fortran 90 compiler (f90 ) is a cross-compiler... checking whether Fortran 90 works with Fortran 77... no checking whether Fortran accepts ! for comments... yes checking for include directory flag for Fortran... -I checking for Fortran 77 flag for library directories... -L checking for which Fortran libraries are needed to link C with Fortran... none checking whether Fortran compiler processes .F files with C preprocessor... yes checking for c++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking whether the compiler supports exceptions... yes checking whether the compiler recognizes bool as a built-in type... yes checking whether the compiler implements namespaces... yes checking whether <iostream> available... yes checking whether the compiler implements the namespace std... yes checking whether <math> available... no checking for GNU g++ version... 3 . 4 checking for perl... /usr/local_rwth/bin/perl checking for ar... ar checking for ranlib... ranlib checking for etags... etags checking for etags argument to specify language... --language=c checking for killall... killall checking whether global variables handled properly... yes checking for a BSD-compatible install... /usr/local_rwth/bin/ginstall -c checking whether install works... yes checking whether install breaks libraries... no checking whether mkdir -p works... yes checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... no checking for bash... /bin/sh checking whether /bin/sh supports arrays... yes checking for doctext... false checking for location of doctext style files... unavailable checking for an ANSI C-conforming const... yes checking for volatile... yes checking for restrict... __restrict checking for inline... inline checking whether __attribute__ allowed... yes checking whether __attribute__((format)) allowed... yes checking whether byte ordering is bigendian... no checking whether C compiler allows unaligned doubles... yes Using gcc to determine dependencies checking whether long double is supported... yes checking whether long long is supported... yes checking for max C struct integer alignment... eight checking for max C struct floating point alignment... sixteen checking for max C struct alignment of structs with doubles... eight checking for max C struct floating point alignment with long doubles... sixteen checking if alignment of structs with doubles is based on position... no checking if alignment of structs with long long ints is based on position... no checking if double alignment breaks rules, find actual alignment... no checking for alignment restrictions on pointers... int or better 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 for char... yes checking size of char... 1 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... 8 checking for long long... yes checking size of long long... 8 checking for float... yes checking size of float... 4 checking for double... yes checking size of double... 8 checking for long double... yes checking size of long double... 16 checking for wchar_t... yes checking size of wchar_t... 4 checking for void *... yes checking size of void *... 8 checking for size of float int... 8 checking for size of double int... 12 checking for size of long int... 12 checking for size of short int... 6 checking for size of 2 int... 8 checking for size of long double int... 20 checking for sys/bitypes.h... yes checking for int16_t... yes checking for int32_t... yes checking for int64_t... yes checking for size of Fortran type integer... 4 checking for size of Fortran type real... 4 checking for size of Fortran type double precision... 8 checking whether integer*1 is supported... yes checking whether integer*2 is supported... yes checking whether integer*4 is supported... yes checking whether integer*8 is supported... yes checking whether integer*16 is supported... yes checking whether real*4 is supported... yes checking whether real*8 is supported... yes checking whether real*16 is supported... no checking for C type matching Fortran integer... int checking for size of MPI_Status... 20 checking for values of Fortran logicals... True is 1 and False is 0 checking for Fortran 90 integer kind for 8-byte integers... unavailable checking for Fortran 90 integer kind for 4-byte integers... unavailable checking for bool... yes checking size of bool... 1 checking how to run the C++ preprocessor... g++ -E checking for complex... yes checking for Complex... yes checking size of Complex... 8 checking for DoubleComplex... yes checking size of DoubleComplex... 16 checking for LongDoubleComplex... yes checking size of LongDoubleComplex... 32 checking if char * pointers use byte addresses... yes checking for alignment restrictions on int64_t... no checking for alignment restrictions on int32_t... no checking for size of MPI_BSEND_OVERHEAD... 95 checking for gcc __asm__ and pentium cmpxchgl instruction... no checking for gcc __asm__ and AMD x86_64 cmpxchgq instruction... yes checking for gcc __asm__ and IA64 xchg4 instruction... no checking for ANSI C header files... (cached) yes checking for stdlib.h... (cached) yes checking for stdarg.h... yes checking for sys/types.h... (cached) yes checking for inttypes.h... (cached) yes checking for limits.h... yes checking for stddef.h... yes checking for errno.h... yes checking for sys/socket.h... yes checking for sys/time.h... yes checking for unistd.h... (cached) yes checking for endian.h... yes checking for sys/uio.h... yes checking for size_t... yes checking for setitimer... yes checking for alarm... yes checking for vsnprintf... yes checking for vsprintf... yes checking whether vsnprintf needs a declaration... no checking for strerror... yes checking for snprintf... yes checking whether snprintf needs a declaration... no checking for va_copy... yes checking for working alloca.h... yes checking for alloca... yes checking for strdup... yes checking whether strdup needs a declaration... no checking for clock_gettime... no checking for clock_getres... no checking for gethrtime... no checking for gettimeofday... yes sourcing /home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/setup_device RUNNING SETUP_DEVICE FOR THE CH3 DEVICE sourcing /home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/setup_channel RUNNING SETUP_CHANNEL FOR THE SOCK CHANNEL sourcing /home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/setup RUNNING SETUP FOR THE SOCK INTERFACE checking for pthread.h... yes checking for pthread_yield... no checking for library containing pthread_key_create... -lpthread checking for sched_yield... yes checking for yield... no checking for usleep... yes checking for sleep... yes checking for select... yes RUNNING CONFIGURE FOR CH3 DEVICE checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... no checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 how to run the C preprocessor... gcc -E checking for assert.h... yes checking for limits.h... yes checking for string.h... yes checking for sys/types.h... yes checking for sys/uio.h... yes checking for uuid/uuid.h... yes checking for time.h... yes checking for ctype.h... yes checking for unistd.h... yes checking for arpa/inet.h... yes checking for sys/socket.h... yes checking for net/if.h... yes checking for egrep... grep -E checking for ANSI C header files... yes checking for sys/types.h... (cached) yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... (cached) 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... (cached) yes checking for pid_t... yes checking for inet_pton... yes checking for gethostname... yes checking whether gethostname needs a declaration... no checking for CFUUIDCreate... no checking for uuid_generate... no checking for time... yes checking for library containing uuid_generate... -luuid checking whether CPP accepts variable length argument lists... yes checking whether byte ordering is bigendian... no checking whether we can use struct ifconf... yes checking for int... yes checking size of int... 4 checking for long... yes checking size of long... 8 checking for long long... yes checking size of long long... 8 checking for void *... yes checking size of void *... 8 checking for etags... etags configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating util/Makefile config.status: creating util/sock/Makefile config.status: creating util/shm/Makefile config.status: creating util/shmbase/Makefile config.status: creating channels/Makefile config.status: creating localdefs config.status: creating include/mpid_thread.h config.status: creating include/mpidi_ch3_conf.h config.status: executing default-1 commands copying /home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/../common/thread/mpid_thread_mpe.c to src/mpid_thread.c configure: configuring in channels/sock configure: running /bin/sh '/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/configure' --prefix=/home/cy849828/mpich2-install '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' --cache-file=/dev/null --srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock RUNNING CONFIGURE FOR THE SOCK CHANNEL checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... no checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 net/if.h... yes checking how to run the C preprocessor... gcc -E checking for netdb.h... yes checking for sys/ioctl.h... yes checking for sys/socket.h... yes checking for sys/sockio.h... no checking for sys/types.h... yes checking for errno.h... yes checking for netinet/in.h... yes configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating localdefs config.status: creating include/mpidi_ch3i_sock_conf.h RUNNING CONFIGURE FOR THE SOCK INTERFACE checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... no configure: creating ./config.status config.status: creating Makefile config.status: creating localdefs config.status: creating mpidu_sock_conf.h configure: configuring in poll configure: running /bin/sh '/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll/configure' --prefix=/home/cy849828/mpich2-install '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' --cache-file=/dev/null --srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll RUNNING CONFIGURE FOR THE POLL IMPLEMENTATION OF SOCK checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... no checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 inline... inline checking for poll... yes checking how to run the C preprocessor... gcc -E checking for assert.h... yes checking for errno.h... yes checking for fcntl.h... yes checking for limits.h... yes checking for netdb.h... yes checking for netinet/in.h... yes checking for netinet/tcp.h... yes checking for poll.h... yes checking for stdlib.h... yes checking for sys/param.h... yes checking for sys/poll.h... yes checking for sys/types.h... yes checking for sys/uio.h... yes checking for unistd.h... yes checking if struct poll is defined... yes checking if a simple program using poll() can be compiled... yes checking whether bit fields work in ip.h... yes checking for gethostname... yes checking whether gethostname needs a declaration... no checking for library containing socket... none required checking for library containing gethostbyname... none required checking whether socklen_t is defined (in sys/socket.h if present)... yes checking for etags... etags configure: creating ./config.status config.status: creating Makefile config.status: creating localdefs config.status: creating mpidu_socki_conf.h Configuring with args --prefix=/home/cy849828/mpich2-install CC=gcc CXX=g++ checking for architecture... LINUX ROMIO home directory is /home/cy849828/mpich2-1.0.5p4/src/mpi/romio checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 whether we are using the GNU Fortran 77 compiler... yes checking whether gfortran accepts -g... yes checking how to run the C preprocessor... gcc -E checking for memalign... yes checking Fortran external names Fortran externals have a trailing underscore and are lowercase checking for inline... inline 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 for unistd.h... (cached) yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking malloc.h usability... yes checking malloc.h presence... yes checking for malloc.h... yes checking stddef.h usability... yes checking stddef.h presence... yes checking for stddef.h... yes checking for int... yes checking size of int... 4 checking for void *... yes checking size of void *... 8 checking for int large enough for pointers... no checking for long long... yes checking size of long long... 8 checking for extension for Fortran 90 programs... unknown! checking for Fortran 90 KIND parameter for 8-byte integers... unavailable checking that we can use integer*8 to declare MPI_DISPLACMENT_CURRENT... yes Overriding Array test for MPICH2 checking for weak symbol support... pragma weak checking that weak symbols are visible to other files... yes checking that the compiler correctly implements weak symbols... yes checking whether struct flock compatible with MPI_Offset... yes checking for pvfs2-config... notfound checking configured file systems... testfs ufs nfs checking for library containing aio_write... -lrt checking signal.h usability... yes checking signal.h presence... yes checking for signal.h... yes checking if aio.h exists and can be compiled... yes checking if sys/aio.h exists and can be compiled... no checking whether aio routines can be used... yes checking for obsolete two-argument aio_write... no checking for obsolete two-argument aio_suspend... no checking for aio_fildes member of aiocb structure... yes checking for aio_whence member of aiocb structure... no checking for aio_handle member of aiocb structure... no checking for aio_reqprio member of aiocb structure... yes checking for aio_sigevent member of aiocb structure... yes checking sys/vfs.h usability... yes checking sys/vfs.h presence... yes checking for sys/vfs.h... yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking sys/mount.h usability... yes checking sys/mount.h presence... yes checking for sys/mount.h... yes checking sys/statvfs.h usability... yes checking sys/statvfs.h presence... yes checking for sys/statvfs.h... yes checking whether struct statfs properly defined... yes checking for f_fstypename member of statfs structure... no checking for sys/stat.h... (cached) yes checking for sys/types.h... (cached) yes checking for unistd.h... (cached) yes checking for stat... yes checking for st_fstype member of stat structure... no checking for sys/types.h... (cached) yes checking for sys/statvfs.h... (cached) yes checking for sys/vfs.h... (cached) yes checking for statvfs... yes checking for f_basetype member of statvfs structure... no checking for unistd.h... (cached) yes checking for large file defines... yes checking whether off64_t is an scalar type... yes checking for strerror... yes checking for doctext... false checking for strdup... yes checking whether strdup needs a declaration... no checking for snprintf... yes checking whether snprintf needs a declaration... no checking for lstat... yes checking whether lstat needs a declaration... yes checking for readlink... yes checking whether readlink needs a declaration... no checking for fsync... yes checking whether fsync needs a declaration... no checking for ftruncate... yes checking whether ftruncate needs a declaration... no checking for restrict... __restrict checking whether __attribute__ allowed... yes checking whether __attribute__((format)) allowed... yes setting CC to gcc setting F77 to gfortran setting TEST_CC to /home/cy849828/mpich2-1.0.5p4/bin/mpicc setting TEST_F77 to /home/cy849828/mpich2-1.0.5p4/bin/mpif77 setting CFLAGS to -O -DFORTRANUNDERSCORE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64 -DHAVE_ROMIOCONF_H setting USER_CFLAGS to setting USER_FFLAGS to configure: creating ./config.status config.status: creating Makefile config.status: creating localdefs config.status: creating mpi-io/Makefile config.status: creating mpi2-other/info/Makefile config.status: creating mpi2-other/array/Makefile config.status: creating adio/common/Makefile config.status: creating test/Makefile config.status: creating test/misc.c config.status: creating test/large_file.c config.status: creating test/runtests config.status: creating util/romioinstall config.status: creating include/mpio.h config.status: creating include/mpiof.h config.status: creating adio/ad_nfs/Makefile config.status: creating adio/ad_ufs/Makefile config.status: creating adio/ad_panfs/Makefile config.status: creating adio/ad_xfs/Makefile config.status: creating adio/ad_sfs/Makefile config.status: creating adio/ad_pfs/Makefile config.status: creating adio/ad_testfs/Makefile config.status: creating adio/ad_pvfs/Makefile config.status: creating adio/ad_pvfs2/Makefile config.status: creating adio/ad_gridftp/Makefile config.status: creating mpi-io/fortran/Makefile config.status: creating mpi2-other/info/fortran/Makefile config.status: creating mpi2-other/array/fortran/Makefile config.status: creating test/fmisc.f config.status: creating test/fcoll_test.f config.status: creating test/pfcoll_test.f config.status: creating test/fperf.f config.status: creating mpi-io/glue/mpich2/Makefile config.status: creating mpi-io/glue/mpich1/Makefile config.status: creating mpi-io/glue/default/Makefile config.status: creating adio/include/romioconf.h config.status: executing default-1 commands RUNNING CONFIGURE FOR THE SIMPLE PMI checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... no checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 how to run the C preprocessor... gcc -E checking for unistd.h... yes checking for string.h... yes checking for stdlib.h... yes checking for sys/socket.h... yes checking for strings.h... yes checking for snprintf... yes checking whether snprintf needs a declaration... no checking for sys/types.h... yes checking for sys/param.h... yes checking for sys/socket.h... (cached) yes checking for netinet/in.h... yes checking for netinet/tcp.h... yes checking for sys/un.h... yes checking for netdb.h... yes checking for library containing socket... none required checking for library containing gethostbyname... none required checking for socket... yes checking for setsockopt... yes checking for gethostbyname... yes checking whether socklen_t is defined (in sys/socket.h if present)... yes checking whether struct hostent contains h_addr_list... yes configure: creating ./config.status config.status: creating Makefile config.status: creating localdefs config.status: creating pmiconf.h Configuring with args --prefix=/home/cy849828/mpich2-install CC=gcc CXX=g++ checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 whether make sets $(MAKE)... yes checking whether ln -s works... yes checking for a BSD-compatible install... /usr/local_rwth/bin/ginstall -c checking whether install /usr/local_rwth/bin/ginstall -c works... yes Using INSTALL=/usr/local_rwth/bin/ginstall -c checking for totalview... totalview checking for python2.5... no checking for python2.4... no checking for python2.3... python2.3 checking for python2.2... no checking for python2... python2 checking for python... python checking that python2.3 is a valid python version... yes checking that the cPickle module is available for python2.3... yes checking for library containing socket... none required checking how to run the C preprocessor... gcc -E checking for egrep... grep -E checking for ANSI C header files... yes checking for sys/wait.h that is POSIX.1 compatible... 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 fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking for strings.h... (cached) yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking for unistd.h... (cached) yes checking for stdlib.h... (cached) yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking for putenv... yes checking for socket... yes configure: creating ./config.status config.status: creating Makefile config.status: creating mpdconf.h Configuring MPE Profiling System with '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' checking gnumake... yes using --no-print-directory checking BSD 4.4 make... no - whew checking OSF V3 make... no checking for virtual path format... VPATH This MPE build is part of the MPICH2 build checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 whether MPI_CC has been set ... /home/cy849828/mpich2-1.0.5p4/bin/mpicc checking whether we are using the GNU Fortran 77 compiler... yes checking whether gfortran accepts -g... yes checking whether MPI_F77 has been set ... /home/cy849828/mpich2-1.0.5p4/bin/mpif77 checking how to get verbose linking output from gfortran... -v checking for Fortran libraries of gfortran... -L/usr/lib/gcc/x86_64-redhat-linux/4.1.0 -L/usr/lib/gcc/x86_64-redhat-linux/4.1.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -lpthread -lrt -lgfortranbegin -lgfortran -lm -lgcc_s checking whether C can link with -L/usr/lib/gcc/x86_64-redhat-linux/4.1.0 -L/usr/lib/gcc/x86_64-redhat-linux/4.1.0/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -lpthread -lrt -lgfortranbegin -lgfortran -lm -lgcc_s... yes checking for Fortran 77 name mangling... lower underscore checking for Fortran 77 flag for library directories... -L checking for include directory flag for Fortran... -I checking how to run the C preprocessor... gcc -E checking whether ln -s works... yes checking for a BSD-compatible install... /usr/local_rwth/bin/ginstall -c checking whether install works... yes checking for ranlib... ranlib checking whether install breaks libraries... no checking for leftover Makefiles in subpackages ... none configure: creating ./config.status config.status: creating Makefile config.status: creating sbin/mpetestlink config.status: creating sbin/mpetestexec config.status: creating sbin/mpetestexeclog config.status: creating sbin/mpeinstall config.status: creating sbin/mpecheckinstall config.status: creating sbin/mpecheckbuild config.status: creating etc/mpe_help.conf config.status: creating etc/mpe_f77env.conf config.status: creating mpe_conf.h config.status: executing default-1 commands configure: configuring in src/misc configure: running /bin/sh '/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/misc/configure' --prefix=/home/cy849828/mpich2-install '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' --cache-file=/dev/null --srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/misc Configuring MPE Miscellaneous Library with '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' '--cache-file=/dev/null' '--srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/misc' checking gnumake... yes using --no-print-directory checking BSD 4.4 make... no - whew checking OSF V3 make... no checking for virtual path format... VPATH checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 ar... ar checking for ranlib... ranlib checking how to run the C preprocessor... gcc -E checking for dbx... no checking for gdb... /usr/local_host/bin/gdb checking for egrep... grep -E checking for ANSI C header files... yes checking for an ANSI C-conforming const... yes checking for sysinfo... yes checking for uname... yes checking for gethostbyname... 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 for unistd.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking netdb.h usability... yes checking netdb.h presence... yes checking for netdb.h... yes checking sys/systeminfo.h usability... no checking sys/systeminfo.h presence... no checking for sys/systeminfo.h... no checking for sighandler_t... no configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating src/dbxerr.c config.status: creating mpe_misc_conf.h configure: configuring in src/logging configure: running /bin/sh '/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/logging/configure' --prefix=/home/cy849828/mpich2-install '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' --cache-file=/dev/null --srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/logging Configuring MPE Logging Library and Tools with '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' '--cache-file=/dev/null' '--srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/logging' checking gnumake... yes using --no-print-directory checking BSD 4.4 make... no - whew checking OSF V3 make... no checking for virtual path format... VPATH checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 ar... ar checking for ranlib... ranlib checking how to run the C preprocessor... gcc -E checking for egrep... grep -E checking for ANSI C header files... yes checking for an ANSI C-conforming const... yes checking whether byte ordering is bigendian... no 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 stdio.h usability... yes checking stdio.h presence... yes checking for stdio.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking for sys/types.h... (cached) yes checking sys/bitypes.h usability... yes checking sys/bitypes.h presence... yes checking for sys/bitypes.h... yes checking for header that defines C99 integer types, intXX_t ... <stdint.h> checking for inttypes.h... (cached) yes checking whether <inttypes.h> defines the PRIdXX macros ... yes checking if <stdint.h> can be behind system headers ... yes checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking for snprintf... yes checking whether snprintf needs a declaration... no checking for mkstemp... yes checking whether mkstemp needs a declaration... no checking for srand48... yes checking whether srand48 needs a declaration... no checking for lrand48... yes checking whether lrand48 needs a declaration... no checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... no checking for _LARGE_FILES value needed for large files... no checking whether _LARGEFILE64_SOURCE is needed ... no checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking for O_BINARY for open() ... no configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating include/clog_inttypes.h config.status: creating etc/mpe_log.conf config.status: creating etc/mpe_nolog.conf config.status: creating mpe_logging_conf.h configure: configuring in src/wrappers configure: running /bin/sh '/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/wrappers/configure' --prefix=/home/cy849828/mpich2-install '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' --cache-file=/dev/null --srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/wrappers Configuring MPE wrapper Library For MPI with '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' '--cache-file=/dev/null' '--srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/wrappers' checking gnumake... yes using --no-print-directory checking BSD 4.4 make... no - whew checking OSF V3 make... no checking for virtual path format... VPATH checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 ar... ar checking for ranlib... ranlib checking how to run the C preprocessor... gcc -E checking for egrep... grep -E checking for ANSI C header files... yes checking for an ANSI C-conforming const... 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 stdio.h usability... yes checking stdio.h presence... yes checking for stdio.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking stdarg.h usability... yes checking stdarg.h presence... yes checking for stdarg.h... yes checking for working alloca.h... yes checking for alloca... yes checking for stdarg is correct... yes checking if compiler accepts prototypes ... yes checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking for safe PMPI invocations ... no checking for the value of MPI_STATUS_SIZE ... 5 configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating test/Makefile config.status: creating etc/mpe_f77env.conf config.status: creating etc/mpe_mpilog.conf config.status: creating etc/mpe_mpitrace.conf config.status: creating mpe_wrappers_conf.h configure: configuring in src/graphics configure: running /bin/sh '/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/graphics/configure' --prefix=/home/cy849828/mpich2-install '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' --cache-file=/dev/null --srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/graphics Configuring MPE X Graphics Library with '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' '--cache-file=/dev/null' '--srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/graphics' checking gnumake... yes using --no-print-directory checking BSD 4.4 make... no - whew checking OSF V3 make... no checking for virtual path format... VPATH checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 ar... ar checking for ranlib... ranlib checking how to run the C preprocessor... gcc -E checking for X... libraries /usr/X11R6/lib64, headers /usr/X11R6/include checking for egrep... grep -E checking for ANSI C header files... yes checking for an ANSI C-conforming const... yes checking for long pointers... yes checking for system... 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 for unistd.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating contrib/life/Makefile config.status: creating contrib/mandel/Makefile config.status: creating contrib/mastermind/Makefile config.status: creating contrib/test/Makefile config.status: creating etc/mpe_mpianim.conf config.status: creating etc/mpe_graphics.conf config.status: creating mpe_graphics_conf.h configure: configuring in src/collchk configure: running /bin/sh '/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/collchk/configure' --prefix=/home/cy849828/mpich2-install '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' --cache-file=/dev/null --srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/collchk Configuring MPE Collective and Datatype Checking Library with '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' '--cache-file=/dev/null' '--srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/collchk' checking gnumake... yes using --no-print-directory checking BSD 4.4 make... no - whew checking OSF V3 make... no checking for virtual path format... VPATH checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 ar... ar checking for ranlib... ranlib checking how to run the C preprocessor... gcc -E checking for egrep... grep -E checking for ANSI C header files... yes checking for an ANSI C-conforming const... 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 stdio.h usability... yes checking stdio.h presence... yes checking for stdio.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for unistd.h... (cached) yes checking for working alloca.h... yes checking for alloca... yes configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating test/Makefile config.status: creating etc/mpe_mpicheck.conf config.status: creating mpe_collchk_conf.h configure: configuring in src/slog2sdk configure: running /bin/sh '/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/slog2sdk/configure' --prefix=/home/cy849828/mpich2-install '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' --cache-file=/dev/null --srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/slog2sdk Configuring SLOG2SDK with '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' '--cache-file=/dev/null' '--srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/slog2sdk' checking gnumake... yes using --no-print-directory checking BSD 4.4 make... no - whew checking OSF V3 make... no checking for virtual path format... VPATH checking for a BSD-compatible install... /usr/local_rwth/bin/ginstall -c checking whether install works... yes checking if CLASSPATH is set... no, good to go checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking for java in user's PATH... found /usr/local_rwth/bin/java checking if /usr/local_rwth/bin/java works... yes checking if /usr/local_rwth/bin/java runs simple jar file... yes checking if /usr/local_rwth/bin/java runs simple Swing class... yes checking if /usr/local_rwth/bin/java runs simple Swing jar file... yes checking for Java version... java full version "1.6.0_02-b05", i.e. Java 2 SDK checking for cygpath... no creating /home/cy849828/mpich2-1.0.5p4/src/mpe2/src/slog2sdk/share creating sample logfiles from source checking for leftover Makefiles in subpackages ... none configure: creating ./config.status config.status: creating Makefile config.status: creating sbin/install-package config.status: creating bin/slog2print config.status: creating bin/slog2navigator config.status: creating bin/slog2filter config.status: creating bin/slog2updater config.status: creating bin/logconvertor config.status: creating bin/jumpshot config.status: creating bin/clogprint config.status: creating bin/clogTOslog2 config.status: creating bin/clog2print config.status: creating bin/clog2TOslog2 configure: configuring in trace_rlog configure: running /bin/sh '/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/slog2sdk/trace_rlog/configure' --prefix=/home/cy849828/mpich2-install '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' '--cache-file=/dev/null' '--srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/slog2sdk' --cache-file=/dev/null --srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/slog2sdk/trace_rlog Configuring TRACE_RLOG implementation with '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' 'CFLAGS=' 'CPPFLAGS= -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/datatype -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/ch3/channels/sock/include -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll -I/home/cy849828/mpich2-1.0.5p4/src/mpid/common/sock/poll' 'F77=gfortran' 'FFLAGS=' 'MPI_CC=/home/cy849828/mpich2-1.0.5p4/bin/mpicc' 'MPI_F77=/home/cy849828/mpich2-1.0.5p4/bin/mpif77' '--srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/slog2sdk' '--cache-file=/dev/null' '--srcdir=/home/cy849828/mpich2-1.0.5p4/src/mpe2/src/slog2sdk/trace_rlog' 'CXXFLAGS=' checking gnumake... yes using --no-print-directory checking BSD 4.4 make... no - whew checking OSF V3 make... no checking for virtual path format... VPATH checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 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 for stdlib.h... (cached) yes checking stdio.h usability... yes checking stdio.h presence... yes checking for stdio.h... yes checking for string.h... (cached) yes checking ctype.h usability... yes checking ctype.h presence... yes checking for ctype.h... yes checking errno.h usability... yes checking errno.h presence... yes checking for errno.h... yes checking for an ANSI C-conforming const... yes checking for void*... yes checking size of void*... 8 checking for int... yes checking size of int... 4 checking for long... yes checking size of long... 8 checking for long long... yes checking size of long long... 8 checking for __int64... no checking size of __int64... 0 checking whether byte ordering is bigendian... no checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking for sed... sed checking for a sed that does not truncate output... /usr/local_rwth/bin/gsed checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for /usr/bin/ld option to reload object files... -r checking for BSD-compatible nm... /usr/bin/nm -B checking whether ln -s works... yes checking how to recognise dependent libraries... pass_all checking dlfcn.h usability... yes checking dlfcn.h presence... yes checking for dlfcn.h... yes checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking how to run the C++ preprocessor... g++ -E checking whether we are using the GNU Fortran 77 compiler... yes checking whether gfortran accepts -g... yes checking the maximum length of command line arguments... 32768 checking command to parse /usr/bin/nm -B output from gcc object... ok checking for objdir... .libs checking for ar... ar checking for ranlib... ranlib checking for strip... strip checking if gcc static flag works... yes checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC checking if gcc PIC flag -fPIC works... yes checking if gcc supports -c -o file.o... yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no configure: creating libtool appending configuration tag "CXX" to libtool checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC checking if g++ PIC flag -fPIC works... yes checking if g++ supports -c -o file.o... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes appending configuration tag "F77" to libtool checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for gfortran option to produce PIC... -fPIC checking if gfortran PIC flag -fPIC works... yes checking if gfortran supports -c -o file.o... yes checking whether the gfortran linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking for malloc in -lefence... yes checking for strstr... yes checking target system type... x86_64-unknown-linux-gnu checking for javah in user's PATH... found /usr/bin/javah checking if /usr/bin/javah works... unknown! checking if /usr exists... yes checking for <jni.h> include flag... no checking for working javah in user's PATH... found /usr/java/bin/javah checking if /usr/java/bin/javah works... unknown! checking if /usr/java exists... yes checking for <jni.h> include flag... found -I/usr/java/include -I/usr/java/include/linux checking for <jni.h> usability... yes checking for cygpath... no checking for a BSD-compatible install... /usr/local_rwth/bin/ginstall -c checking whether install works... yes checking for ranlib... (cached) ranlib checking whether install breaks libraries... no creating directory /home/cy849828/mpich2-1.0.5p4/src/mpe2/src/slog2sdk/trace_rlog/lib creating /home/cy849828/mpich2-1.0.5p4/src/mpe2/src/slog2sdk/trace_rlog/share creating sample logfiles from source configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating sbin/install-package config.status: creating bin/traceprint config.status: creating bin/traceTOslog2 config.status: creating trace_impl.h SLOG2SDK: "trace_rlog" have been configured MPE2: "src/misc" "src/logging" "src/wrappers" "src/graphics" "src/collchk" "src/slog2sdk" have been configured checking the sizeof MPI_Offset... 8 configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating src/include/Makefile config.status: creating src/include/mpichtimer.h config.status: creating src/binding/Makefile config.status: creating src/binding/cxx/Makefile config.status: creating src/binding/cxx/mpicxx.h config.status: creating src/binding/f77/Makefile config.status: creating src/binding/f77/mpif.h config.status: creating src/binding/f77/setbotf.f config.status: creating src/binding/f90/Makefile config.status: creating src/binding/f90/mpi_sizeofs.f90 config.status: creating src/env/mpicc config.status: creating src/env/mpicc.conf config.status: creating src/env/mpicc.bash config.status: creating src/env/mpicxx config.status: creating src/env/mpicxx.conf config.status: creating src/env/mpicxx.bash config.status: creating src/env/mpif77 config.status: creating src/env/mpif77.conf config.status: creating src/env/mpif77.bash config.status: creating src/env/mpif90 config.status: creating src/env/mpif90.conf config.status: creating src/env/mpif90.bash config.status: creating src/env/mpich2version config.status: creating src/env/parkill config.status: creating src/env/Makefile config.status: creating src/util/createshlib config.status: creating src/mpi/Makefile config.status: creating src/mpi/attr/Makefile config.status: creating src/mpi/coll/Makefile config.status: creating src/mpi/comm/Makefile config.status: creating src/mpi/datatype/Makefile config.status: creating src/mpi/debugger/Makefile config.status: creating src/mpi/errhan/Makefile config.status: creating src/mpi/group/Makefile config.status: creating src/mpi/init/Makefile config.status: creating src/mpi/misc/Makefile config.status: creating src/mpi/pt2pt/Makefile config.status: creating src/mpi/rma/Makefile config.status: creating src/mpi/spawn/Makefile config.status: creating src/mpi/timer/Makefile config.status: creating src/mpi/topo/Makefile config.status: creating src/mpid/Makefile config.status: creating src/mpid/common/Makefile config.status: creating src/mpid/common/datatype/Makefile config.status: creating src/mpid/common/locks/Makefile config.status: creating src/pm/Makefile config.status: creating src/pmi/Makefile config.status: creating src/nameserv/Makefile config.status: creating src/nameserv/file/Makefile config.status: creating src/nameserv/mpd/Makefile config.status: creating src/nameserv/pmi/Makefile config.status: creating src/nameserv/test/Makefile config.status: creating src/util/Makefile config.status: creating src/util/info/Makefile config.status: creating src/util/instrm/Makefile config.status: creating src/util/thread/Makefile config.status: creating src/util/thread/mpe_thread.h config.status: creating src/util/mem/Makefile config.status: creating src/util/msgs/Makefile config.status: creating src/util/param/Makefile config.status: creating src/util/dbg/Makefile config.status: creating src/util/dbg/getfuncstack config.status: creating src/util/osserv/Makefile config.status: creating src/include/mpi.h config.status: creating test/Makefile config.status: creating test/util/Makefile config.status: creating test/basic/Makefile config.status: creating test/commands/Makefile config.status: creating test/commands/cmdtests config.status: creating test/mpid/Makefile config.status: creating test/mpid/ch3/Makefile config.status: creating examples/Makefile config.status: creating examples/f77/Makefile config.status: creating examples/f90/Makefile config.status: creating examples/cxx/Makefile config.status: creating src/util/logging/Makefile config.status: creating src/util/logging/common/Makefile config.status: creating doc/Makefile config.status: creating doc/mansrc/Makefile config.status: creating doc/mansrc/createhtmlindex config.status: creating doc/refman/Makefile config.status: creating doc/installguide/Makefile config.status: creating doc/userguide/Makefile config.status: creating doc/logging/Makefile config.status: creating doc/design/Makefile config.status: creating doc/smpd/Makefile config.status: creating doc/windev/Makefile config.status: creating src/include/mpichconf.h config.status: executing default-1 commands config.status: executing default-2 commands config.status: executing default-3 commands config.status: executing default-4 commands copying ./src/util/thread/mpe_thread_posix.c to src/util/thread/mpe_thread.c moving mpe_thread.h to src/include config.status: executing default-5 commands config.status: executing default-6 commands config.status: executing default-7 commands config.status: executing default-8 commands config.status: executing default-9 commands config.status: executing default-10 commands config.status: executing default-11 commands config.status: executing default-12 commands config.status: executing default-13 commands config.status: executing default-14 commands config.status: executing default-15 commands configure: configuring in test/mpi configure: running /bin/sh './configure' --prefix=/home/cy849828/mpich2-install '--prefix=/home/cy849828/mpich2-install' 'CC=gcc' 'CXX=g++' --cache-file=/dev/null --srcdir=. RUNNING CONFIGURE FOR MPI TESTS checking for make... make checking whether clock skew breaks make... no checking whether make supports include... yes checking whether make allows comments in actions... yes checking for virtual path format... VPATH checking whether make sets CFLAGS... no checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 whether we are using the GNU Fortran 77 compiler... yes checking whether gfortran accepts -g... yes checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking whether long double is supported... yes checking whether long long is supported... yes checking for an ANSI C-conforming const... yes checking for restrict... __restrict checking how to run the C preprocessor... gcc -E checking for unistd.h... yes checking for stdarg.h... yes checking for string.h... yes checking for stdlib.h... yes checking for memory.h... yes Configuring tests for MPICH2 checking whether integer*4 is supported... yes checking whether integer*8 is supported... yes checking whether integer*16 is supported... yes checking for Fortran 77 name mangling... lower underscore checking for Fortran libraries needed for getarg... none needed checking whether Fortran has pointer declaration... no checking whether <iostream> available... yes checking whether the compiler implements namespaces... yes checking whether the compiler implements the namespace std... yes checking for perl... /usr/local_rwth/bin/perl checking for etags... etags configure: creating ./config.status config.status: creating maint/testmerge config.status: creating runtests config.status: creating Makefile config.status: creating basic/Makefile config.status: creating attr/Makefile config.status: creating util/Makefile config.status: creating coll/Makefile config.status: creating comm/Makefile config.status: creating datatype/Makefile config.status: creating errhan/Makefile config.status: creating group/Makefile config.status: creating info/Makefile config.status: creating init/Makefile config.status: creating pt2pt/Makefile config.status: creating rma/Makefile config.status: creating spawn/Makefile config.status: creating topo/Makefile config.status: creating io/Makefile config.status: creating f77/Makefile config.status: creating f77/attr/Makefile config.status: creating f77/attr/attraints.h config.status: creating f77/datatype/Makefile config.status: creating f77/datatype/typeaints.h config.status: creating f77/util/Makefile config.status: creating f77/coll/Makefile config.status: creating f77/comm/Makefile config.status: creating f77/topo/Makefile config.status: creating f77/init/Makefile config.status: creating f77/rma/addsize.h config.status: creating f77/pt2pt/Makefile config.status: creating f77/info/Makefile config.status: creating f77/spawn/Makefile config.status: creating f77/spawn/type1aint.h config.status: creating f77/rma/Makefile config.status: creating f77/ext/Makefile config.status: creating f77/ext/testlist config.status: creating f77/io/Makefile config.status: creating f77/io/iooffset.h config.status: creating f77/io/iodisp.h config.status: creating f77/io/ioaint.h config.status: creating f90/Makefile config.status: creating f90/attr/Makefile config.status: creating f90/datatype/Makefile config.status: creating f90/util/Makefile config.status: creating f90/coll/Makefile config.status: creating f90/comm/Makefile config.status: creating f90/topo/Makefile config.status: creating f90/init/Makefile config.status: creating f90/pt2pt/Makefile config.status: creating f90/rma/Makefile config.status: creating f90/info/Makefile config.status: creating f90/spawn/Makefile config.status: creating f90/timer/Makefile config.status: creating f90/ext/Makefile config.status: creating f90/ext/testlist config.status: creating f90/io/Makefile config.status: creating f90/misc/Makefile config.status: creating cxx/Makefile config.status: creating cxx/util/Makefile config.status: creating cxx/attr/Makefile config.status: creating cxx/comm/Makefile config.status: creating cxx/coll/Makefile config.status: creating cxx/info/Makefile config.status: creating cxx/datatype/Makefile config.status: creating cxx/io/Makefile config.status: creating cxx/init/Makefile config.status: creating cxx/rma/Makefile config.status: creating cxx/spawn/Makefile config.status: creating threads/Makefile config.status: creating threads/pt2pt/Makefile config.status: creating threads/util/Makefile config.status: creating threads/comm/Makefile config.status: creating errors/Makefile config.status: creating errors/coll/Makefile config.status: creating errors/comm/Makefile config.status: creating errors/group/Makefile config.status: creating errors/pt2pt/Makefile config.status: creating errors/rma/Makefile config.status: creating errors/spawn/Makefile config.status: creating errors/io/Makefile config.status: creating errors/cxx/Makefile config.status: creating errors/cxx/errhan/Makefile config.status: creating errors/cxx/io/Makefile config.status: creating errors/f77/Makefile config.status: creating errors/f90/Makefile config.status: creating manual/Makefile config.status: creating manual/manyconnect config.status: creating perf/Makefile config.status: creating testlist config.status: creating cxx/testlist config.status: creating f77/testlist config.status: creating f90/testlist config.status: creating errors/testlist config.status: creating errors/cxx/testlist config.status: creating include/mpitestconf.h config.status: executing default-1 commands config.status: executing default-2 commands config.status: executing default-3 commands Configuration completed.
iofn1 : COMMENT -
Because of cpp option READ_FROM_FILE,
read file "ab.files" instead of standard input
ABINIT
Give name for formatted input file:
b001-4layer-2cell2-phys1.in
Give name for formatted output file:
b001-4layer-2cell2-phys1.out
Give root name for generic input files:
b001-4layer-2cell2-phys1i
Give root name for generic output files:
b001-4layer-2cell2-phys1o
Give root name for generic temporary files:
b001-4layer-2cell2-phys1
-P-0000 leave_test : synchronization done...
.Version 5.3.4 of ABINIT
.(MPI version, prepared for a x86_64_linux_gnu computer)
.Copyright (C) 1998-2007 ABINIT group .
ABINIT comes with ABSOLUTELY NO WARRANTY.
It is free software, and you are welcome to redistribute it
under certain conditions (GNU General Public License,
see ~abinit/COPYING or http://www.gnu.org/copyleft/gpl.txt).
ABINIT is a project of the Universite Catholique de Louvain,
Corning Inc. and other collaborators, see
~abinit/doc/developers/contributors.txt .
Please read ~abinit/doc/users/acknowledgments.html for suggested
acknowledgments of the ABINIT effort.
For more information, see http://www.abinit.org .
.Starting date : Sat 11 Aug 2007.
- input file -> b001-4layer-2cell2-phys1.in
- output file -> b001-4layer-2cell2-phys1.out
- root for input files -> b001-4layer-2cell2-phys1i
- root for output files -> b001-4layer-2cell2-phys1o
instrng : 98 lines of input have been read
39264
52053
37547
-P-0001 leave_test : synchronization done...
-P-0002 leave_test : synchronization done...
-P-0003 leave_test : synchronization done...
rank 0 in job 1 linuxoc42.rz.RWTH-Aachen.DE_38971 caused collective abort
of all ranks
exit status of rank 0: return code 2
------------------------------------------------------------------------------
| Execution of Batch-Request started at Sat Aug 11 16:52:48 CEST 2007
| on host linuxoc42.rz.RWTH-Aachen.DE
| MPI tasks started on
| linuxoc42.rz.RWTH-Aachen.DE 1
| linuxoc36.rz.RWTH-Aachen.DE 1
| linuxoc51.rz.RWTH-Aachen.DE 1
| linuxoc37.rz.RWTH-Aachen.DE 1
| SGE Request: 1194019 Queue: linux_amd64_v40z.q
------------------------------------------------------------------------------
(OK) Loading mpich2-64 1.0.5 with adaptive layer
Fortran runtime error: Attempting to allocate already allocated array.
------------------------------------------------------------------------------
| Execution of Batch-Request stopped at Sat Aug 11 16:53:00 CEST 2007
| peak memory value: 207.445M
| real time used: 00:00:16
------------------------------------------------------------------------------
Filesystem Size Used Avail Use%
/home/cy849828 934M 384M 550M 42%
#$ -o $HOME/work/silica/para_test.txt
#$ -j y
#$ -l h_rt=23:55:55
#$ -l h_vmem=400M
#$ -pe mpi_linux* 4
cd $HOME/work/silica/
module load mpich2-64
mpiexec -machinefile ${SGE_MACHINES}.mpich -n $NSLOTS abinip <paw-ad.files>
log.001pbeta-1phys1-para
- Run time error in abinip compiled by mpich2, Yu Chol Jun, 08/10/2007
- Re: [abinit-forum] Run time error in abinip compiled by mpich2, Anglade Pierre-Matthieu, 08/10/2007
- Re: [abinit-forum] Run time error in abinip compiled by mpich2, Yu Chol Jun, 08/11/2007
- Re: [abinit-forum] Run time error in abinip compiled by mpich2, Anglade Pierre-Matthieu, 08/11/2007
- Re: [abinit-forum] Run time error in abinip compiled by mpich2, Yu Chol Jun, 08/11/2007
- Message not available
- Message not available
- Message not available
- Message not available
- Re: [abinit-forum] Run time error in abinip compiled by mpich2, Yu Chol Jun, 08/15/2007
- Message not available
- Message not available
- Re: [abinit-forum] Run time error in abinip compiled by mpich2, Yu Chol Jun, 08/11/2007
- Re: [abinit-forum] Run time error in abinip compiled by mpich2, Anglade Pierre-Matthieu, 08/11/2007
- Re: [abinit-forum] Run time error in abinip compiled by mpich2, Yu Chol Jun, 08/11/2007
- Re: [abinit-forum] Run time error in abinip compiled by mpich2, Anglade Pierre-Matthieu, 08/10/2007
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