[mpich-discuss] mpich-3.1.4: 'make testing' fails
arindam ghosh
arindamgr at gmail.com
Wed Jul 8 00:00:58 CDT 2015
Dear All,
I'm trying to install mpich-3.1.4 in my desktop:
CC=gcc CXX=g++ FC=gfortran F77=gfortran ./configure --prefix=/usr/local
--enable-fortran --enable-cxx 2>&1 | tee c.txt
make 2>&1 | tee m.txt
make install 2>&1 | tee mi.txt
I'm using gcc/gfortran/g++ version 4.9.2-6. As such there is no error, but
while doing 'make testing', it shows following errors (taken from file
./test/mpi/summary.tap), please see below:
not ok 297 - ./pt2pt/sendflood 8
---
Directory: ./pt2pt
File: sendflood
Num-procs: 8
Date: "Wed Jul 8 00:01:41 2015"
...
## Test output (expected 'No Errors'):
## [mpiexec at localhost.localdomain] APPLICATION TIMED OUT
not ok 333 - ./rma/getfence1 4
---
Directory: ./rma
File: getfence1
Num-procs: 4
Date: "Wed Jul 8 00:06:49 2015"
...
## Test output (expected 'No Errors'):
##
##
===================================================================================
## = BAD TERMINATION OF ONE OF YOUR APPLICATION PROCESSES
## = PID 12669 RUNNING AT localhost.localdomain
## = EXIT CODE: 9
## = CLEANING UP REMAINING PROCESSES
## = YOU CAN IGNORE THE BELOW CLEANUP MESSAGES
##
===================================================================================
## YOUR APPLICATION TERMINATED WITH THE EXIT STRING: Killed (signal 9)
## This typically refers to a problem with your application.
## Please see the FAQ page for debugging suggestions
not ok 836 - ./threads/pt2pt/threads
---
Directory: ./threads/pt2pt
File: threads
Num-procs:
Date: "Wed Jul 8 00:11:54 2015"
...
## Test output (expected 'No Errors'):
## Failed to build threads; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
## CC threads.o
## (cd ../../threads/util && make mtestthread.o)
## make[4]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/util'
## CC mtestthread.o
## make[4]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/util'
## CCLD threads
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:522: recipe for target 'threads' failed
## make[3]: *** [threads] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
not ok 837 - ./threads/pt2pt/threaded_sr
---
Directory: ./threads/pt2pt
File: threaded_sr
Num-procs:
Date: "Wed Jul 8 00:11:54 2015"
...
## Test output (expected 'No Errors'):
## Failed to build threaded_sr; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
## CC threaded_sr.o
## CCLD threaded_sr
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:518: recipe for target 'threaded_sr' failed
## make[3]: *** [threaded_sr] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
not ok 838 - ./threads/pt2pt/alltoall
---
Directory: ./threads/pt2pt
File: alltoall
Num-procs:
Date: "Wed Jul 8 00:11:54 2015"
...
## Test output (expected 'No Errors'):
## Failed to build alltoall; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
## CC alltoall.o
## CCLD alltoall
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:482: recipe for target 'alltoall' failed
## make[3]: *** [alltoall] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
not ok 839 - ./threads/pt2pt/sendselfth
---
Directory: ./threads/pt2pt
File: sendselfth
Num-procs:
Date: "Wed Jul 8 00:11:54 2015"
...
## Test output (expected 'No Errors'):
## Failed to build sendselfth; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
## CC sendselfth.o
## CCLD sendselfth
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:514: recipe for target 'sendselfth' failed
## make[3]: *** [sendselfth] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
not ok 840 - ./threads/pt2pt/multisend
---
Directory: ./threads/pt2pt
File: multisend
Num-procs:
Date: "Wed Jul 8 00:11:54 2015"
...
## Test output (expected 'No Errors'):
## Failed to build multisend; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
## CC multisend.o
## CCLD multisend
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:498: recipe for target 'multisend' failed
## make[3]: *** [multisend] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
not ok 841 - ./threads/pt2pt/multisend2
---
Directory: ./threads/pt2pt
File: multisend2
Num-procs:
Date: "Wed Jul 8 00:11:54 2015"
...
## Test output (expected 'No Errors'):
## Failed to build multisend2; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
## CC multisend2.o
## CCLD multisend2
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:502: recipe for target 'multisend2' failed
## make[3]: *** [multisend2] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
not ok 842 - ./threads/pt2pt/multisend3
---
Directory: ./threads/pt2pt
File: multisend3
Num-procs:
Date: "Wed Jul 8 00:11:54 2015"
...
## Test output (expected 'No Errors'):
## Failed to build multisend3; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
## CC multisend3.o
## CCLD multisend3
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:506: recipe for target 'multisend3' failed
## make[3]: *** [multisend3] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
not ok 843 - ./threads/pt2pt/multisend4
---
Directory: ./threads/pt2pt
File: multisend4
Num-procs:
Date: "Wed Jul 8 00:11:54 2015"
...
## Test output (expected 'No Errors'):
## Failed to build multisend4; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
## CC multisend4.o
## CCLD multisend4
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:510: recipe for target 'multisend4' failed
## make[3]: *** [multisend4] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
not ok 844 - ./threads/pt2pt/greq_wait
---
Directory: ./threads/pt2pt
File: greq_wait
Num-procs:
Date: "Wed Jul 8 00:11:54 2015"
...
## Test output (expected 'No Errors'):
## Failed to build greq_wait; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
## CC greq_wait.o
## CCLD greq_wait
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:490: recipe for target 'greq_wait' failed
## make[3]: *** [greq_wait] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
not ok 845 - ./threads/pt2pt/greq_test
---
Directory: ./threads/pt2pt
File: greq_test
Num-procs:
Date: "Wed Jul 8 00:11:54 2015"
...
## Test output (expected 'No Errors'):
## Failed to build greq_test; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
## CC greq_test.o
## CCLD greq_test
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:486: recipe for target 'greq_test' failed
## make[3]: *** [greq_test] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
not ok 846 - ./threads/pt2pt/ibsend
---
Directory: ./threads/pt2pt
File: ibsend
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build ibsend; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
## CC ibsend.o
## CCLD ibsend
## /usr/bin/ld: ibsend.o: undefined reference to symbol 'pthread_create@
@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:494: recipe for target 'ibsend' failed
## make[3]: *** [ibsend] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/pt2pt'
not ok 847 - ./threads/comm/ctxdup
---
Directory: ./threads/comm
File: ctxdup
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build ctxdup; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/comm'
## CC ctxdup.o
## CCLD ctxdup
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:471: recipe for target 'ctxdup' failed
## make[3]: *** [ctxdup] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/comm'
not ok 848 - ./threads/comm/dup_leak_test
---
Directory: ./threads/comm
File: dup_leak_test
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build dup_leak_test; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/comm'
## CC dup_leak_test.o
## CCLD dup_leak_test
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:479: recipe for target 'dup_leak_test' failed
## make[3]: *** [dup_leak_test] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/comm'
not ok 849 - ./threads/comm/comm_dup_deadlock
---
Directory: ./threads/comm
File: comm_dup_deadlock
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build comm_dup_deadlock; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/comm'
## CC comm_dup_deadlock.o
## CCLD comm_dup_deadlock
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:463: recipe for target 'comm_dup_deadlock' failed
## make[3]: *** [comm_dup_deadlock] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/comm'
not ok 850 - ./threads/comm/comm_create_threads
---
Directory: ./threads/comm
File: comm_create_threads
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build comm_create_threads; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/comm'
## CC comm_create_threads.o
## CCLD comm_create_threads
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:459: recipe for target 'comm_create_threads' failed
## make[3]: *** [comm_create_threads] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/comm'
not ok 851 - ./threads/comm/comm_create_group_threads
---
Directory: ./threads/comm
File: comm_create_group_threads
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build comm_create_group_threads; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/comm'
## CC comm_create_group_threads.o
## CCLD comm_create_group_threads
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:455: recipe for target 'comm_create_group_threads' failed
## make[3]: *** [comm_create_group_threads] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/comm'
ok 859 - ./threads/comm/comm_idup 4 # SKIP xfail tests disabled
ok 860 - ./threads/comm/ctxidup 4 # SKIP xfail tests disabled
not ok 852 - ./threads/init/initth
---
Directory: ./threads/init
File: initth
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build initth; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/init'
## CC initth.o
## CCLD initth
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:405: recipe for target 'initth' failed
## make[3]: *** [initth] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/init'
not ok 853 - ./threads/init/initth
---
Directory: ./threads/init
File: initth
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build initth; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/init'
## CC initth.o
## CCLD initth
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:405: recipe for target 'initth' failed
## make[3]: *** [initth] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/init'
not ok 854 - ./threads/mpi_t/mpit_threading
---
Directory: ./threads/mpi_t
File: mpit_threading
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build mpit_threading; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/mpi_t'
## CC mpit_threading.o
## CCLD mpit_threading
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:405: recipe for target 'mpit_threading' failed
## make[3]: *** [mpit_threading] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/mpi_t'
not ok 855 - ./threads/spawn/multispawn
---
Directory: ./threads/spawn
File: multispawn
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build multispawn; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/spawn'
## CC multispawn.o
## CCLD multispawn
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:412: recipe for target 'multispawn' failed
## make[3]: *** [multispawn] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/spawn'
not ok 856 - ./threads/spawn/th_taskmaster
---
Directory: ./threads/spawn
File: th_taskmaster
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build th_taskmaster; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/spawn'
## CC th_taskmaster.o
## CCLD th_taskmaster
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:416: recipe for target 'th_taskmaster' failed
## make[3]: *** [th_taskmaster] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/spawn'
not ok 857 - ./threads/rma/multirma
---
Directory: ./threads/rma
File: multirma
Num-procs:
Date: "Wed Jul 8 00:11:55 2015"
...
## Test output (expected 'No Errors'):
## Failed to build multirma; make[3]: Entering directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/rma'
## CC multirma.o
## CCLD multirma
## /usr/bin/ld: ../../threads/util/mtestthread.o: undefined reference to
symbol 'pthread_create@@GLIBC_2.2.5'
## /lib64/libpthread.so.0: error adding symbols: DSO missing from command
line
## collect2: error: ld returned 1 exit status
## Makefile:416: recipe for target 'multirma' failed
## make[3]: *** [multirma] Error 1
## make[3]: Leaving directory
'/home/arindam/software/mpich-3.1.4/test/mpi/threads/rma'
ok 867 - ./threads/rma/multiget 2 # SKIP xfail tests disabled
ok 858 - ./impls/mpich/mpi_t/collparmt 16
Please tell me how to fix these errors.
Thanking you,
Regards,
Arindam
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