| vanihba2000 |
August 27, 2015 09:38 |
mapFields : mpirun gives segmentation fault
I want to run mapFields in parallel. I am using the following commands to do so :
First,
Code:
<targetdirectory>$ decomposePar
Then,
Code:
<targetdirectory>$ mpirun -np 8 mapFields <sourcedirectory> -consistent -parallel
And I get the following error :
Code:
/*---------------------------------------------------------------------------*\
| ========= | |
| \\ / F ield | OpenFOAM: The Open Source CFD Toolbox |
| \\ / O peration | Version: 2.3.0 |
| \\ / A nd | Web: www.OpenFOAM.org |
| \\/ M anipulation | |
\*---------------------------------------------------------------------------*/
Build : 2.3.0-f5222ca19ce6
Exec : mapFields -consistent ../chevron_v2_2p0_U25/ -parallel
Date : Aug 27 2015
Time : 18:44:37
Host : "admin2-B85M-D3H"
PID : 24985
Case : /home/admin2/Chevron_Work/cases_of/chevron_v2/chevron_U25/chevron_U25_k0.01/chevron_v2_2p5_U25
nProcs : 8
Slaves :
7
(
"admin2-B85M-D3H.24986"
"admin2-B85M-D3H.24987"
"admin2-B85M-D3H.24988"
"admin2-B85M-D3H.24989"
"admin2-B85M-D3H.24990"
"admin2-B85M-D3H.24991"
"admin2-B85M-D3H.24992"
)
Pstream initialized with:
floatTransfer : 0
nProcsSimpleSum : 0
commsType : nonBlocking
polling iterations : 0
sigFpe : Enabling floating point exception trapping (FOAM_SIGFPE).
fileModificationChecking : Monitoring run-time modified files using timeStampMaster
allowSystemOperations : Disallowing user-supplied system call operations
// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
Source: "../chevron_v2_2p0_U25" ""
Target: "/home/admin2/Chevron_Work/cases_of/chevron_v2/chevron_U25/chevron_U25_k0.01" "chevron_v2_2p5_U25"
Create databases as time
Case : ../chevron_v2_2p0_U25
nProcs : 8
Slaves :
7
(
"admin2-B85M-D3H.24986"
"admin2-B85M-D3H.24987"
"admin2-B85M-D3H.24988"
"admin2-B85M-D3H.24989"
"admin2-B85M-D3H.24990"
"admin2-B85M-D3H.24991"
"admin2-B85M-D3H.24992"
)
Pstream initialized with:
floatTransfer : 0
nProcsSimpleSum : 0
commsType : nonBlocking
polling iterations : 0
Source time: 0
Target time: 0
Create meshes
Source mesh size: 93771 Target mesh size: 152552
Consistently creating and mapping fields for time 0
Creating mesh-to-mesh addressing for region0 and region0 regions using cellVolumeWeight
[6] #0 Foam::error::printStack(Foam::Ostream&)[2] #0 Foam::error::printStack(Foam::Ostream&)[3] #0 Foam::error::printStack(Foam::Ostream&)[7] #0 Foam::error::printStack(Foam::Ostream&) at ??:?
[6] #1 Foam::sigSegv::sigHandler(int) at ??:?
[7] #1 Foam::sigSegv::sigHandler(int) at ??:?
[2] #1 Foam::sigSegv::sigHandler(int) at ??:?
[3] #1 Foam::sigSegv::sigHandler(int) at ??:?
[2] #2 at ??:?
[3] #2 at ??:?
[6] #2 at ??:?
[7] #2 [5] #0 Foam::error::printStack(Foam::Ostream&) in "/lib/x86_64-linux-gnu/libc.so.6"
[6] #3 cfree in "/lib/x86_6 in "/lib/x86_64-linux-gnu/libc.so.6"
[2] #3 cfree4-linux-gnu/libc.so.6"
[3] #3 cfree[4] [0] #0 Foam::error::printStack(Foam::Ostream&) in "/lib/x86_64-linux-gnu/libc.so.6"
[6] #4 Foam::List<int>::operator=(Foam::List<int> const&) at ??:?
[5] #1 Foam::sigSegv::sigHandler(int)#0 Foam::error::printStack(Foam::Ostream&) in "/lib/x86_64-linux-gnu/libc.so.6"
[7] #3 cfree in "/lib/x86_64-linux-gnu/libc.so.6"
[3] #4 Foam::List<int>::operator=(Foam::List<int> const&) in "/lib/x86_64-linux-gnu/libc.so.6"
[2] #4 Foam::List<int>::operator=(Foam::List<int> const&)[1] #0 Foam::error::printStack(Foam::Ostream&) in "/lib/x86_64-linux-gnu/libc.so.6"
[7] #4 Foam::List<int>::operator=(Foam::List<int> const&) at ??:?
[2] #5 Foam::meshToMesh::distributeAndMergeCells(Foam::mapDistribute const&, Foam::polyMesh const&, Foam::globalIndex const&, Foam::Field<Foam::Vector<double> >&, Foam::List<Foam::face>&, Foam::List<int>&, Foam::List<int>&, Foam::List<int>&) const at ??:?
[6] #5 Foam::meshToMesh::distributeAndMergeCells(Foam::mapDistribute const&, Foam::polyMesh const&, Foam::globalIndex const&, Foam::Field<Foam::Vector<double> >&, Foam::List<Foam::face>&, Foam::List<int>&, Foam::List<int>&, Foam::List<int>&) const at ??:?
[3] #5 Foam::meshToMesh::distributeAndMergeCells(Foam::mapDistribute const&, Foam::polyMesh const&, Foam::globalIndex const&, Foam::Field<Foam::Vector<double> >&, Foam::List<Foam::face>&, Foam::List<int>&, Foam::List<int>&, Foam::List<int>&) const at ??:?
[5] #2 at ??:?
[4] #1 Foam::sigSegv::sigHandler(int) at ??:?
[1] #1 Foam::sigSegv::sigHandler(int) at ??:?
[6] #6 Foam::meshToMesh::calculate() at ??:?
[3] #6 Foam::meshToMesh::calculate() at ??:?
[0] #1 Foam::sigSegv::sigHandler(int) at ??:?
[2] #6 Foam::meshToMesh::calculate() in "/lib/x86_64-linux-gnu/libc.so.6"
[5] #3 cfree at ??:?
[3] #7 Foam::meshToMesh::meshToMesh(Foam::polyMesh const&, Foam::polyMesh const&, Foam::meshToMesh::interpolationMethod const&, bool) at ??:?
[2] #7 Foam::meshToMesh::meshToMesh(Foam::polyMesh const&, Foam::polyMesh const&, Foam::meshToMesh::interpolationMethod const&, bool) at ??:?
[7] #5 Foam::meshToMesh::distributeAndMergeCells(Foam::mapDistribute const&, Foam::polyMesh const&, Foam::globalIndex const&, Foam::Field<Foam::Vector<double> >&, Foam::List<Foam::face>&, Foam::List<int>&, Foam::List<int>&, Foam::List<int>&) const at ??:?
[0] #2 at ??:?
[4] #2 at ??:?
[6] #7 Foam::meshToMesh::meshToMesh(Foam::polyMesh const&, Foam::polyMesh const&, Foam::meshToMesh::interpolationMethod const&, bool) at ??:?
[7] #6 Foam::meshToMesh::calculate() in "/lib/x86_64-linux-gnu/libc.so.6"
[5] #4 Foam::List<int>::operator=(Foam::List<int> const&) at ??:?
[1] #2 at ??:?
[2] #8 at ??:?
[3] #8 in "/lib/x86_64-linux-gnu/libc.so.6"
[4] #3 cfree at ??:?
[7] #7 Foam::meshToMesh::meshToMesh(Foam::polyMesh const&, Foam::polyMesh const&, Foam::meshToMesh::interpolationMethod const&, bool) at ??:?
[5] #5 Foam::meshToMesh::distributeAndMergeCells(Foam::mapDistribute const&, Foam::polyMesh const&, Foam::globalIndex const&, Foam::Field<Foam::Vector<double> >&, Foam::List<Foam::face>&, Foam::List<int>&, Foam::List<int>&, Foam::List<int>&) const at ??:?
[6] #8
in "/lib/x86_64-linux-gnu/libc.so.6"
[0] #3 cfree
in "/lib/x86_64-linux-gnu/libc.so.6"
[4] #4 Foam::List<int>::operator=(Foam::List<int> const&) at ??:?
[5] #6 Foam::meshToMesh::calculate()[2] at ??:?
[2] #9 in "/lib/x86_64-linux-gnu/libc.so.6"
[1] #3 cfree
at ??:?
[7] #8 [3] at ??:?
[3] #9 in "/lib/x86_64-linux-gnu/libc.so.6"
[0] #4 Foam::List<int>::operator=(Foam::List<int> const&) at ??:?
[5] #7 Foam::meshToMesh::meshToMesh(Foam::polyMesh const&, Foam::polyMesh const&, Foam::meshToMesh::interpolationMethod const&, bool) in "/lib/x86_64-linux-gnu/libc.so.6"
[1] #4 Foam::List<int>::operator=(Foam::List<int> const&)[6] at ??:?
[6] #9 at ??:?
[4] #5 Foam::meshToMesh::distributeAndMergeCells(Foam::mapDistribute const&, Foam::polyMesh const&, Foam::globalIndex const&, Foam::Field<Foam::Vector<double> >&, Foam::List<Foam::face>&, Foam::List<int>&, Foam::List<int>&, Foam::List<int>&) const
at ??:?
[0] #5 Foam::meshToMesh::distributeAndMergeCells(Foam::mapDistribute const&, Foam::polyMesh const&, Foam::globalIndex const&, Foam::Field<Foam::Vector<double> >&, Foam::List<Foam::face>&, Foam::List<int>&, Foam::List<int>&, Foam::List<int>&) const at ??:?
[5] #8
at ??:?
[4] #6 Foam::meshToMesh::calculate() at ??:?
[0] #6 Foam::meshToMesh::calculate()
[6] at ??:?
[6] #10 __libc_start_main at ??:?
[1] #5 Foam::meshToMesh::distributeAndMergeCells(Foam::mapDistribute const&, Foam::polyMesh const&, Foam::globalIndex const&, Foam::Field<Foam::Vector<double> >&, Foam::List<Foam::face>&, Foam::List<int>&, Foam::List<int>&, Foam::List<int>&) const[2] at ??:?
[2] #10 __libc_start_main[3] at ??:?
[3] #10 __libc_start_main[7] at ??:?
[7] #9 [5] at ??:?
[5] #9 in "/lib/x86_64-linux-gnu/libc.so.6"
[2] #11 in "/lib/x86_64-linux-gnu/libc.so.6"
[6] #11 at ??:?
[4] #7 Foam::meshToMesh::meshToMesh(Foam::polyMesh const&, Foam::polyMesh const&, Foam::meshToMesh::interpolationMethod const&, bool) at ??:?
[1] #6 Foam::meshToMesh::calculate()
in "/lib/x86_64-linux-gnu/libc.so.6"
[3] #11 at ??:?
[4] #8 at ??:?
[0] #7 Foam::meshToMesh::meshToMesh(Foam::polyMesh const&, Foam::polyMesh const&, Foam::meshToMesh::interpolationMethod const&, bool)
[6] at ??:?
[2] at ??:?
[7] at ??:?
[7] #10 __libc_start_main at ??:?
[1] #7 Foam::meshToMesh::meshToMesh(Foam::polyMesh const&, Foam::polyMesh const&, Foam::meshToMesh::interpolationMethod const&, bool) at ??:?
[0] #8 [5] at ??:?
[5] #10 __libc_start_main[4] at ??:?
[4] #9
[3] at ??:?
in "/lib/x86_64-linux-gnu/libc.so.6"
[5] #11
at ??:?
[1] #8 [4] at ??:?
[4] #10 __libc_start_main
in "/lib/x86_64-linux-gnu/libc.so.6"
[7] #11
[0] at ??:?
[0] #9 [5] at ??:?
[7] at ??:?
[1] at ??:?
[1] #9 in "/lib/x86_64-linux-gnu/libc.so.6"
[4] #11
[4] at ??:?
[0] at ??:?
[0] #10 __libc_start_main[1] at ??:?
[1] #10 __libc_start_main in "/lib/x86_64-linux-gnu/libc.so.6"
[1] #11
in "/lib/x86_64-linux-gnu/libc.so.6"
[0] #11
[0] at ??:?
[1] at ??:?
--------------------------------------------------------------------------
mpirun noticed that process rank 6 with PID 24991 on node admin2-B85M-D3H exited on signal 11 (Segmentation fault).
--------------------------------------------------------------------------
|
