[mvapich-discuss] failing to configure mvapich2 on debian amd64 -
umad.h not found
Denis
denismpa at gmail.com
Tue Aug 17 17:58:10 EDT 2010
Tring to avoid the post of the whole file ( 590 lines ) I am sending the
lines that seems to be related to umad.h's checking.
If there is any missing information, just let me know and I ll post the
rest.
configure:4423: gcc -E -I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src conftest.c
configure:4430: $? = 0
configure:4444: result: yes
configure:4472: checking for hwloc.h
configure:4479: result: yes
configure:4605: checking for the InfiniBand includes path
configure:4612: result: default
configure:4616: checking for the InfiniBand library path
configure:4643: result: default
configure:4646: checking for library containing umad_init
configure:4687: gcc -o conftest -g -O2 -DNDEBUG -O2
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src conftest.c -lhwloc
-lhwloc -lpthread >&5
/tmp/ccpaMZS6.o: In function `main':
/root/src/mvapich2-1.5-2010-08-12/src/mpid/ch3/channels/mrail/conftest.c:35:
undefined reference to `umad_init'
collect2: ld returned 1 exit status
configure:4694: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define STDC_HEADERS 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_MEMORY_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_ERRNO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_PTHREAD_H 1
| #define HAVE_LIBHWLOC /**/
| #define _EM64T_ 1
| /* end confdefs.h. */
|
| /* Override any GCC internal prototype to avoid an error.
| Use char because int might match the return type of a GCC
| builtin and then its argument prototype would still apply. */
| #ifdef __cplusplus
| extern "C"
| #endif
| char umad_init ();
| int
| main ()
| {
| return umad_init ();
| ;
| return 0;
| }
configure:4687: gcc -o conftest -g -O2 -DNDEBUG -O2
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src conftest.c -libumad
-lhwloc -lhwloc -lpthread >&5
configure:4694: $? = 0
configure:4725: result: -libumad
configure:4737: checking for library containing ibv_open_device
configure:4778: gcc -o conftest -g -O2 -DNDEBUG -O2
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src conftest.c -libumad
-lhwloc -lhwloc -lpthread >&5
/tmp/ccgpFcr5.o: In function `main':
/root/src/mvapich2-1.5-2010-08-12/src/mpid/ch3/channels/mrail/conftest.c:35:
undefined reference to `ibv_open_device'
collect2: ld returned 1 exit status
configure:4785: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define STDC_HEADERS 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_MEMORY_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_ERRNO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_PTHREAD_H 1
| #define HAVE_LIBHWLOC /**/
| #define _EM64T_ 1
| /* end confdefs.h. */
|
| /* Override any GCC internal prototype to avoid an error.
| Use char because int might match the return type of a GCC
| builtin and then its argument prototype would still apply. */
| #ifdef __cplusplus
| extern "C"
| #endif
| char ibv_open_device ();
| int
| main ()
| {
| return ibv_open_device ();
| ;
| return 0;
| }
configure:4778: gcc -o conftest -g -O2 -DNDEBUG -O2
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src conftest.c -libverbs
-libumad -lhwloc -lhwloc -lpthread >&5
configure:4785: $? = 0
configure:4816: result: -libverbs
configure:4838: checking infiniband/umad.h usability
configure:4855: gcc -c -g -O2 -DNDEBUG -O2
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src conftest.c >&5
In file included from conftest.c:57:
/usr/include/infiniband/umad.h:37:31: error: infiniband/common.h: No such
file or directory
configure:4862: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define STDC_HEADERS 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_MEMORY_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_ERRNO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_PTHREAD_H 1
| #define HAVE_LIBHWLOC /**/
| #define _EM64T_ 1
| /* end confdefs.h. */
| #include <stdio.h>
| #ifdef HAVE_SYS_TYPES_H
| # include <sys/types.h>
| #endif
| #ifdef HAVE_SYS_STAT_H
| # include <sys/stat.h>
| #endif
| #ifdef STDC_HEADERS
| # include <stdlib.h>
| # include <stddef.h>
| #else
| # ifdef HAVE_STDLIB_H
| # include <stdlib.h>
| # endif
| #endif
| #ifdef HAVE_STRING_H
| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H
| # include <memory.h>
| # endif
| # include <string.h>
| #endif
| #ifdef HAVE_STRINGS_H
| # include <strings.h>
| #endif
| #ifdef HAVE_INTTYPES_H
| # include <inttypes.h>
| #endif
| #ifdef HAVE_STDINT_H
| # include <stdint.h>
| #endif
| #ifdef HAVE_UNISTD_H
| # include <unistd.h>
| #endif
| #include <infiniband/umad.h>
configure:4876: result: no
configure:4880: checking infiniband/umad.h presence
configure:4895: gcc -E -I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src conftest.c
In file included from conftest.c:24:
/usr/include/infiniband/umad.h:37:31: error: infiniband/common.h: No such
file or directory
configure:4902: $? = 1
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME ""
| #define PACKAGE_TARNAME ""
| #define PACKAGE_VERSION ""
| #define PACKAGE_STRING ""
| #define PACKAGE_BUGREPORT ""
| #define STDC_HEADERS 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_MEMORY_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_ERRNO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_PTHREAD_H 1
| #define HAVE_LIBHWLOC /**/
| #define _EM64T_ 1
| /* end confdefs.h. */
| #include <infiniband/umad.h>
configure:4916: result: no
configure:4944: checking for infiniband/umad.h
configure:4951: result: no
configure:4958: error: 'infiniband/umad.h not found. Did you specify
--with-ib-include=?'
## ---------------- ##
## Cache variables. ##
## ---------------- ##
ac_cv_build=x86_64-unknown-linux-gnu
ac_cv_c_compiler_gnu=yes
ac_cv_env_CC_set=set
ac_cv_env_CC_value=gcc
ac_cv_env_CFLAGS_set=set
ac_cv_env_CFLAGS_value='-g -O2 -DNDEBUG -O2'
ac_cv_env_CPPFLAGS_set=set
ac_cv_env_CPPFLAGS_value='
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src'
ac_cv_env_CPP_set=
ac_cv_env_CPP_value=
ac_cv_env_LDFLAGS_set=
ac_cv_env_LDFLAGS_value=
ac_cv_env_LIBS_set=set
ac_cv_env_LIBS_value='-lhwloc -lpthread'
ac_cv_env_build_alias_set=
ac_cv_env_build_alias_value=
ac_cv_env_host_alias_set=
ac_cv_env_host_alias_value=
ac_cv_env_target_alias_set=
ac_cv_env_target_alias_value=
ac_cv_header_errno_h=yes
ac_cv_header_hwloc_h=yes
ac_cv_header_infiniband_umad_h=no
ac_cv_header_inttypes_h=yes
ac_cv_header_memory_h=yes
ac_cv_header_pthread_h=yes
ac_cv_header_stdc=yes
ac_cv_header_stdint_h=yes
ac_cv_header_stdlib_h=yes
ac_cv_header_string_h=yes
ac_cv_header_strings_h=yes
ac_cv_header_sys_stat_h=yes
ac_cv_header_sys_types_h=yes
ac_cv_header_unistd_h=yes
ac_cv_lib_hwloc_hwloc_topology_set_pid=yes
ac_cv_objext=o
ac_cv_path_EGREP='/bin/grep -E'
ac_cv_path_GREP=/bin/grep
ac_cv_prog_CPP='gcc -E'
ac_cv_prog_MAKE=make
ac_cv_prog_ac_ct_CC=gcc
ac_cv_prog_cc_c89=
ac_cv_prog_cc_g=yes
ac_cv_search_ibv_open_device=-libverbs
ac_cv_search_umad_init=-libumad
pac_cv_my_conf_dir=/root/src/mvapich2-1.5-2010-08-12/src/mpid/ch3/channels/mrail
pac_cv_prog_make_allows_comments=yes
pac_cv_prog_make_found_clock_skew=no
pac_cv_prog_make_include=yes
pac_cv_prog_make_set_cflags=yes
pac_cv_prog_make_vpath=VPATH
## ----------------- ##
## Output variables. ##
## ----------------- ##
AR='ar'
CC='gcc'
CC_SHL='true'
CFLAGS='-g -O2 -DNDEBUG -O2'
CPP='gcc -E'
CPPFLAGS=' -I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src
-I/root/src/mvapich2-1.5-2010-08-12/src/openpa/src'
C_LINK_SHL='true'
DEFS=''
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP='/bin/grep -E'
ENABLE_SHLIB='none'
ETAGS=''
ETAGSADD=''
EXEEXT=''
GREP='/bin/grep'
LDFLAGS=''
LIBOBJS=''
LIBS='-libverbs -libumad -lhwloc -lhwloc -lpthread'
LIBTOOL=''
LTLIBOBJS=''
MAKE='make'
MAKE_DEPEND_C='gcc -MM'
MPILIBNAME='mpich'
OBJEXT='o'
PACKAGE_BUGREPORT=''
PACKAGE_NAME=''
PACKAGE_STRING=''
PACKAGE_TARNAME=''
PACKAGE_VERSION=''
PATH_SEPARATOR=':'
RANLIB='ranlib'
SET_CFLAGS='CFLAGS='
SET_MAKE='MAKE=make'
SHELL='/bin/bash'
SHLIB_EXT='so'
VPATH='VPATH=.:${srcdir}'
ac_ct_CC='gcc'
bindir='${exec_prefix}/bin'
build='x86_64-unknown-linux-gnu'
build_alias=''
build_cpu='x86_64'
build_os='linux-gnu'
build_vendor='unknown'
channel_name='mrail'
datadir='${datarootdir}'
datarootdir='${prefix}/share'
device_name='ch3'
docdir='${datarootdir}/doc/${PACKAGE}'
dvidir='${docdir}'
exec_prefix='NONE'
host_alias=''
htmldir='${docdir}'
includedir='${prefix}/include'
infodir='${datarootdir}/info'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localedir='${datarootdir}/locale'
localstatedir='${prefix}/var'
mandir='${datarootdir}/man'
master_top_builddir='/root/src/mvapich2-1.5-2010-08-12'
master_top_srcdir='/root/src/mvapich2-1.5-2010-08-12'
mrail_fflags=''
mrail_ld_library_path=''
mrail_ldflags=''
mrail_libs=''
oldincludedir='/usr/include'
other_subdirs='gen2'
pdfdir='${docdir}'
prefix='/usr/local'
program_transform_name='s,x,x,'
psdir='${docdir}'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
subdirs=''
sysconfdir='${prefix}/etc'
target_alias=''
use_internal_hwloc='no'
## ----------- ##
## confdefs.h. ##
## ----------- ##
#define PACKAGE_NAME ""
#define PACKAGE_TARNAME ""
#define PACKAGE_VERSION ""
#define PACKAGE_STRING ""
#define PACKAGE_BUGREPORT ""
#define STDC_HEADERS 1
#define HAVE_SYS_TYPES_H 1
#define HAVE_SYS_STAT_H 1
#define HAVE_STDLIB_H 1
#define HAVE_STRING_H 1
#define HAVE_MEMORY_H 1
#define HAVE_STRINGS_H 1
#define HAVE_INTTYPES_H 1
#define HAVE_STDINT_H 1
#define HAVE_UNISTD_H 1
#define HAVE_ERRNO_H 1
#define HAVE_STDLIB_H 1
#define HAVE_UNISTD_H 1
#define HAVE_PTHREAD_H 1
#define HAVE_LIBHWLOC /**/
#define _EM64T_ 1
configure: exit 1
thank you, Jonathan.
2010/8/17 Jonathan Perkins <perkinjo at cse.ohio-state.edu>
> Can you post the config.log file from the src/mpid/ch3/channels/mrail
> directory? There could be something odd going on when its checking
> for umad.h's usability.
>
> On Tue, Aug 17, 2010 at 5:26 PM, Denis <denismpa at gmail.com> wrote:
> > Hi All,
> > I am trying to build mvapich2-1.5 on debian but it won't configure
> > complaining that the header file infiniband/umad.h cannot be found.
> > the last configure lines are below
> > checking pthread.h usability... yes
> > checking pthread.h presence... yes
> > checking for pthread.h... yes
> > ./configure: line 4137: enable_ftb-cr=no: command not found
> > configure: checking for any hwloc installation...
> > checking for hwloc_topology_set_pid in -lhwloc... yes
> > checking hwloc.h usability... yes
> > checking hwloc.h presence... yes
> > checking for hwloc.h... yes
> > checking for the InfiniBand includes path... /usr/include/infiniband
> > checking for the InfiniBand library path... default
> > checking for library containing umad_init... -libumad
> > checking for library containing ibv_open_device... -libverbs
> > checking infiniband/umad.h usability... no
> > checking infiniband/umad.h presence... no
> > checking for infiniband/umad.h... no
> > configure: error: 'infiniband/umad.h not found. Did you specify
> > --with-ib-include=?'
> > configure: error: ./configure failed for channels/mrail
> > configure: error: Configure of src/mpid/ch3 failed!
> >
> > I have tried the version 1.5 and the daily versions from 2010-08-11 and
> > 2010-08-12. They all give me the same issue.
> >
> > However the header file is on the default place,
> > root at localhost:~/src/mvapich2-1.5-2010-08-12# ls
> > /usr/include/infiniband/umad.h
> > /usr/include/infiniband/umad.h
> >
> > as the configure is complaining, I have also tried to specify it with the
> > --with-ib-include option.
> >
> >
> >
> > The library and header files were installed by packages and have the
> > following versions:
> >
> > root at localhost:~/src/mvapich2-1.5-2010-08-12# dpkg -S
> > /usr/include/infiniband/umad.h
> > libibumad-dev: /usr/include/infiniband/umad.h
> > root at localhost:~/src/mvapich2-1.5-2010-08-12# aptitude show
> libibumad-dev
> > Package: libibumad-dev
> > New: yes
> > State: installed
> > Automatically installed: no
> > Version: 1.2.3-20090314-1
> >
> > root at localhost:~/src/mvapich2-1.5-2010-08-12# aptitude show libibumad1
> > Package: libibumad1
> > New: yes
> > State: installed
> > Automatically installed: yes
> > Version: 1.2.3-20090314-1
> >
> > The only way I found that mvapich will configure ( but not compile) is if
> I
> > specify --with-devices=nemesis:ib .
> > The problem seems to lie on the ch3 channel and/or mrail. Whenever I
> enable
> > ch3 or gen2, I fall on the same problem.
> >
> > Any suggestions?
> > Thanks!
> >
> > Denis
> > _______________________________________________
> > mvapich-discuss mailing list
> > mvapich-discuss at cse.ohio-state.edu
> > http://mail.cse.ohio-state.edu/mailman/listinfo/mvapich-discuss
> >
> >
>
>
>
> --
> Jonathan Perkins
>
--
Denis Anjos,
www.versatushpc.com.br
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