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Running CESM on NCAR's Yellowstone
- Thread starter jedwards
- Start date
yafangzhong@wisc_edu
Member
16:Abort(1) on node 16 (rank 16 in comm 1140850688): Fatal error in PMPI_Gatherv: Internal MPI error!, error stack:
16:PMPI_Gatherv(398).....: MPI_Gatherv failed(sbuf=0x74b1c00, scount=2496, dtype=0x4c000829, rbuf=0x74b1c00, rcnts=0x6b290f0, displs=0x6b291d0, dtype=0x4c000829, root=0, comm=0x84000001) failed
16:MPIR_Gatherv_impl(210):
16:MPIR_Gatherv(104).....:
16:MPIR_Localcopy(357)...: memcpy arguments alias each other, dst=0x74b1c00 src=0x74b1c00 len=19968
16:PMPI_Gatherv(398).....: MPI_Gatherv failed(sbuf=0x74b1c00, scount=2496, dtype=0x4c000829, rbuf=0x74b1c00, rcnts=0x6b290f0, displs=0x6b291d0, dtype=0x4c000829, root=0, comm=0x84000001) failed
16:MPIR_Gatherv_impl(210):
16:MPIR_Gatherv(104).....:
16:MPIR_Localcopy(357)...: memcpy arguments alias each other, dst=0x74b1c00 src=0x74b1c00 len=19968
yafangzhong@wisc_edu
Member
16:Abort(1) on node 16 (rank 16 in comm 1140850688): Fatal error in PMPI_Gatherv: Internal MPI error!, error stack:
16:PMPI_Gatherv(398).....: MPI_Gatherv failed(sbuf=0x74b1c00, scount=2496, dtype=0x4c000829, rbuf=0x74b1c00, rcnts=0x6b290f0, displs=0x6b291d0, dtype=0x4c000829, root=0, comm=0x84000001) failed
16:MPIR_Gatherv_impl(210):
16:MPIR_Gatherv(104).....:
16:MPIR_Localcopy(357)...: memcpy arguments alias each other, dst=0x74b1c00 src=0x74b1c00 len=19968
16:PMPI_Gatherv(398).....: MPI_Gatherv failed(sbuf=0x74b1c00, scount=2496, dtype=0x4c000829, rbuf=0x74b1c00, rcnts=0x6b290f0, displs=0x6b291d0, dtype=0x4c000829, root=0, comm=0x84000001) failed
16:MPIR_Gatherv_impl(210):
16:MPIR_Gatherv(104).....:
16:MPIR_Localcopy(357)...: memcpy arguments alias each other, dst=0x74b1c00 src=0x74b1c00 len=19968
yafangzhong@wisc_edu
Member
16:Abort(1) on node 16 (rank 16 in comm 1140850688): Fatal error in PMPI_Gatherv: Internal MPI error!, error stack:
16:PMPI_Gatherv(398).....: MPI_Gatherv failed(sbuf=0x74b1c00, scount=2496, dtype=0x4c000829, rbuf=0x74b1c00, rcnts=0x6b290f0, displs=0x6b291d0, dtype=0x4c000829, root=0, comm=0x84000001) failed
16:MPIR_Gatherv_impl(210):
16:MPIR_Gatherv(104).....:
16:MPIR_Localcopy(357)...: memcpy arguments alias each other, dst=0x74b1c00 src=0x74b1c00 len=19968
16:PMPI_Gatherv(398).....: MPI_Gatherv failed(sbuf=0x74b1c00, scount=2496, dtype=0x4c000829, rbuf=0x74b1c00, rcnts=0x6b290f0, displs=0x6b291d0, dtype=0x4c000829, root=0, comm=0x84000001) failed
16:MPIR_Gatherv_impl(210):
16:MPIR_Gatherv(104).....:
16:MPIR_Localcopy(357)...: memcpy arguments alias each other, dst=0x74b1c00 src=0x74b1c00 len=19968
yafangzhong@wisc_edu
Member
16:Abort(1) on node 16 (rank 16 in comm 1140850688): Fatal error in PMPI_Gatherv: Internal MPI error!, error stack:
16:PMPI_Gatherv(398).....: MPI_Gatherv failed(sbuf=0x74b1c00, scount=2496, dtype=0x4c000829, rbuf=0x74b1c00, rcnts=0x6b290f0, displs=0x6b291d0, dtype=0x4c000829, root=0, comm=0x84000001) failed
16:MPIR_Gatherv_impl(210):
16:MPIR_Gatherv(104).....:
16:MPIR_Localcopy(357)...: memcpy arguments alias each other, dst=0x74b1c00 src=0x74b1c00 len=19968
16:PMPI_Gatherv(398).....: MPI_Gatherv failed(sbuf=0x74b1c00, scount=2496, dtype=0x4c000829, rbuf=0x74b1c00, rcnts=0x6b290f0, displs=0x6b291d0, dtype=0x4c000829, root=0, comm=0x84000001) failed
16:MPIR_Gatherv_impl(210):
16:MPIR_Gatherv(104).....:
16:MPIR_Localcopy(357)...: memcpy arguments alias each other, dst=0x74b1c00 src=0x74b1c00 len=19968
yafangzhong@wisc_edu
Member
16:Abort(1) on node 16 (rank 16 in comm 1140850688): Fatal error in PMPI_Gatherv: Internal MPI error!, error stack:
16:PMPI_Gatherv(398).....: MPI_Gatherv failed(sbuf=0x74b1c00, scount=2496, dtype=0x4c000829, rbuf=0x74b1c00, rcnts=0x6b290f0, displs=0x6b291d0, dtype=0x4c000829, root=0, comm=0x84000001) failed
16:MPIR_Gatherv_impl(210):
16:MPIR_Gatherv(104).....:
16:MPIR_Localcopy(357)...: memcpy arguments alias each other, dst=0x74b1c00 src=0x74b1c00 len=19968
16:PMPI_Gatherv(398).....: MPI_Gatherv failed(sbuf=0x74b1c00, scount=2496, dtype=0x4c000829, rbuf=0x74b1c00, rcnts=0x6b290f0, displs=0x6b291d0, dtype=0x4c000829, root=0, comm=0x84000001) failed
16:MPIR_Gatherv_impl(210):
16:MPIR_Gatherv(104).....:
16:MPIR_Localcopy(357)...: memcpy arguments alias each other, dst=0x74b1c00 src=0x74b1c00 len=19968
I found another file with the same problem, please get /glade/scratch/jedwards/cesmtests/ccsm3_test/SourceMods/src.cam/history.F90 and build again.
It turns out that there is another, easier solution.
Set the environment variable:
MP_EUIDEVELOP=min
and all should work fine.
This variable was recently removed from the default environment which explains why the errors only started appearing now.
- Jim
It turns out that there is another, easier solution.
Set the environment variable:
MP_EUIDEVELOP=min
and all should work fine.
This variable was recently removed from the default environment which explains why the errors only started appearing now.
- Jim
I found another file with the same problem, please get /glade/scratch/jedwards/cesmtests/ccsm3_test/SourceMods/src.cam/history.F90 and build again.
It turns out that there is another, easier solution.
Set the environment variable:
MP_EUIDEVELOP=min
and all should work fine.
This variable was recently removed from the default environment which explains why the errors only started appearing now.
- Jim
It turns out that there is another, easier solution.
Set the environment variable:
MP_EUIDEVELOP=min
and all should work fine.
This variable was recently removed from the default environment which explains why the errors only started appearing now.
- Jim
I found another file with the same problem, please get /glade/scratch/jedwards/cesmtests/ccsm3_test/SourceMods/src.cam/history.F90 and build again.
It turns out that there is another, easier solution.
Set the environment variable:
MP_EUIDEVELOP=min
and all should work fine.
This variable was recently removed from the default environment which explains why the errors only started appearing now.
- Jim
It turns out that there is another, easier solution.
Set the environment variable:
MP_EUIDEVELOP=min
and all should work fine.
This variable was recently removed from the default environment which explains why the errors only started appearing now.
- Jim
I found another file with the same problem, please get /glade/scratch/jedwards/cesmtests/ccsm3_test/SourceMods/src.cam/history.F90 and build again.
It turns out that there is another, easier solution.
Set the environment variable:
MP_EUIDEVELOP=min
and all should work fine.
This variable was recently removed from the default environment which explains why the errors only started appearing now.
- Jim
It turns out that there is another, easier solution.
Set the environment variable:
MP_EUIDEVELOP=min
and all should work fine.
This variable was recently removed from the default environment which explains why the errors only started appearing now.
- Jim
I found another file with the same problem, please get /glade/scratch/jedwards/cesmtests/ccsm3_test/SourceMods/src.cam/history.F90 and build again.
It turns out that there is another, easier solution.
Set the environment variable:
MP_EUIDEVELOP=min
and all should work fine.
This variable was recently removed from the default environment which explains why the errors only started appearing now.
- Jim
It turns out that there is another, easier solution.
Set the environment variable:
MP_EUIDEVELOP=min
and all should work fine.
This variable was recently removed from the default environment which explains why the errors only started appearing now.
- Jim
yafangzhong@wisc_edu
Member
It works. Thank you very much.
Yafang
Yafang
yafangzhong@wisc_edu
Member
It works. Thank you very much.
Yafang
Yafang
yafangzhong@wisc_edu
Member
It works. Thank you very much.
Yafang
Yafang
yafangzhong@wisc_edu
Member
It works. Thank you very much.
Yafang
Yafang
yafangzhong@wisc_edu
Member
It works. Thank you very much.
Yafang
Yafang
yafangzhong@wisc_edu
Member
Hi Jim,
The CCSM3 has problems with resubmitting jobs automatically, though the manually submitted continue-run would be fine.
Could you please take a look at /glade/u/home/yafang/test1? There are two stdout files from Mar 1st. ccsm.stdout.891572
was from a manually submitted continue-run, ccsm.stdout.891581 was from the one submitted automatically. env_run was emptied
as a result of the aborted run.
Thanks,
Yafang
The CCSM3 has problems with resubmitting jobs automatically, though the manually submitted continue-run would be fine.
Could you please take a look at /glade/u/home/yafang/test1? There are two stdout files from Mar 1st. ccsm.stdout.891572
was from a manually submitted continue-run, ccsm.stdout.891581 was from the one submitted automatically. env_run was emptied
as a result of the aborted run.
Thanks,
Yafang
yafangzhong@wisc_edu
Member
Hi Jim,
The CCSM3 has problems with resubmitting jobs automatically, though the manually submitted continue-run would be fine.
Could you please take a look at /glade/u/home/yafang/test1? There are two stdout files from Mar 1st. ccsm.stdout.891572
was from a manually submitted continue-run, ccsm.stdout.891581 was from the one submitted automatically. env_run was emptied
as a result of the aborted run.
Thanks,
Yafang
The CCSM3 has problems with resubmitting jobs automatically, though the manually submitted continue-run would be fine.
Could you please take a look at /glade/u/home/yafang/test1? There are two stdout files from Mar 1st. ccsm.stdout.891572
was from a manually submitted continue-run, ccsm.stdout.891581 was from the one submitted automatically. env_run was emptied
as a result of the aborted run.
Thanks,
Yafang
yafangzhong@wisc_edu
Member
Hi Jim,
The CCSM3 has problems with resubmitting jobs automatically, though the manually submitted continue-run would be fine.
Could you please take a look at /glade/u/home/yafang/test1? There are two stdout files from Mar 1st. ccsm.stdout.891572
was from a manually submitted continue-run, ccsm.stdout.891581 was from the one submitted automatically. env_run was emptied
as a result of the aborted run.
Thanks,
Yafang
The CCSM3 has problems with resubmitting jobs automatically, though the manually submitted continue-run would be fine.
Could you please take a look at /glade/u/home/yafang/test1? There are two stdout files from Mar 1st. ccsm.stdout.891572
was from a manually submitted continue-run, ccsm.stdout.891581 was from the one submitted automatically. env_run was emptied
as a result of the aborted run.
Thanks,
Yafang
yafangzhong@wisc_edu
Member
Hi Jim,
The CCSM3 has problems with resubmitting jobs automatically, though the manually submitted continue-run would be fine.
Could you please take a look at /glade/u/home/yafang/test1? There are two stdout files from Mar 1st. ccsm.stdout.891572
was from a manually submitted continue-run, ccsm.stdout.891581 was from the one submitted automatically. env_run was emptied
as a result of the aborted run.
Thanks,
Yafang
The CCSM3 has problems with resubmitting jobs automatically, though the manually submitted continue-run would be fine.
Could you please take a look at /glade/u/home/yafang/test1? There are two stdout files from Mar 1st. ccsm.stdout.891572
was from a manually submitted continue-run, ccsm.stdout.891581 was from the one submitted automatically. env_run was emptied
as a result of the aborted run.
Thanks,
Yafang