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ATC version 2.0, date: Sep1

Browse Source 
git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@10709 f3b2605a-c512-4ea7-a41b-209d697bcdaa
This commit is contained in:
rjones
2013-09-01 08:07:54 +00:00
parent 2b9171177d
commit 5302074b3f
88 changed files with 4300 additions and 4246 deletions
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163
examples/USER/atc/mesh/gaussianIC2d_hex_uniform.screen
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@ -1,4 +1,4 @@
LAMMPS (27 Aug 2013)
LAMMPS (30 Aug 2013)
units real
atom_style atomic
@ -35,91 +35,92 @@ fix AtC internal atc two_temperature Ar_ttm.mat
ATC: constructing two_temperature coupling with parameter file Ar_ttm.mat
ATC: version 2.0
ATC: peratom PE compute created with ID: 3
ATC: P1, ERROR: mesh file is of unknown type.
ATC: P2, ERROR: mesh file is of unknown type.
ATC: P3, ERROR: mesh file is of unknown type.
ATC: 2 materials defined from Ar_ttm.mat
terminate called after throwing an instance of ' ATC: 2 materials defined from Ar_ttm.mat
ATC: creating two_temperature extrinsic model
ATC: 2 materials defined from Ar_ttm.mat
#fix_modify AtC mesh read gaussianIC2d_hex_uniform.mesh f f p
fix_modify AtC mesh read gaussianIC2d_hex_uniform.exo f f p
ATC: P0, ERROR: mesh file is of unknown type.
ATC::ATC_Error'
[pharsalus:01254] *** Process received signal ***
[pharsalus:01254] Signal: Aborted (6)
[pharsalus:01254] Signal code: (-6)
[pharsalus:01254] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:01254] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:01254] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:01254] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:01254] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:01254] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:01254] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:01254] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x697000]
[pharsalus:01254] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x691659]
[pharsalus:01254] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x79fe8b]
[pharsalus:01254] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7a196c]
[pharsalus:01254] [11] ../../../lmp_openmpi(main+0x49) [0x7af929]
[pharsalus:01254] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:01254] [13] ../../../lmp_openmpi() [0x53b429]
[pharsalus:01254] *** End of error message ***
ATC: P3, ERROR: mesh file is of unknown type.
ATC: P1, ERROR: mesh file is of unknown type.
terminate called after throwing an instance of 'ATC::ATC_Errorterminate called after throwing an instance of 'ATC::ATC_Error'
'
[pharsalus:01257] *** Process received signal ***
[pharsalus:01257] Signal: Aborted (6)
[pharsalus:01257] Signal code: (-6)
[pharsalus:01265] *** Process received signal ***
[pharsalus:01265] Signal: Aborted (6)
[pharsalus:01265] Signal code: (-6)
[pharsalus:01265] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:01265] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:01265] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:01265] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:01265] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:01265] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:01265] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:01265] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x697000]
[pharsalus:01265] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x691659]
[pharsalus:01265] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x79fe8b]
[pharsalus:01265] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7a196c]
[pharsalus:01265] [11] ../../../lmp_openmpi(main+0x49) [0x7af929]
[pharsalus:01265] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:01265] [13] ../../../lmp_openmpi() [0x53b429]
[pharsalus:01265] *** End of error message ***
ATC: P2, ERROR: mesh file is of unknown type.
terminate called after throwing an instance of 'ATC::ATC_Error'
[pharsalus:33367] *** Process received signal ***
[pharsalus:33367] Signal: Aborted (6)
[pharsalus:33367] Signal code: (-6)
terminate called after throwing an instance of 'ATC::ATC_Error'
[pharsalus:33356] *** Process received signal ***
[pharsalus:33356] Signal: Aborted (6)
[pharsalus:33356] Signal code: (-6)
terminate called after throwing an instance of 'ATC::ATC_Error'
[pharsalus:33359] *** Process received signal ***
[pharsalus:33359] Signal: Aborted (6)
[pharsalus:33359] Signal code: (-6)
terminate called after throwing an instance of 'ATC::ATC_Error'
[pharsalus:33363] *** Process received signal ***
[pharsalus:33363] Signal: Aborted (6)
[pharsalus:33363] Signal code: (-6)
[pharsalus:33367] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:33367] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:33367] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:33367] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:33367] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:33367] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:33367] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:33367] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x694a60]
[pharsalus:33367] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6bcc29]
[pharsalus:33367] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x79e68b]
[pharsalus:33367] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7a016c]
[pharsalus:33367] [11] ../../../lmp_openmpi(main+0x49) [0x7ae0f9]
[pharsalus:33367] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:33367] [13] ../../../lmp_openmpi() [0x53a009]
[pharsalus:33367] *** End of error message ***
[pharsalus:33356] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:33356] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:33356] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:33356] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:33356] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:33356] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:33356] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:33356] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x694a60]
[pharsalus:33356] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6bcc29]
[pharsalus:33356] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x79e68b]
[pharsalus:33356] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7a016c]
[pharsalus:33356] [11] ../../../lmp_openmpi(main+0x49) [0x7ae0f9]
[pharsalus:33356] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:33356] [13] ../../../lmp_openmpi() [0x53a009]
[pharsalus:33356] *** End of error message ***
[pharsalus:33359] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:33359] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:33359] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:33359] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:33359] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:33359] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:33359] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:33359] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x694a60]
[pharsalus:33359] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6bcc29]
[pharsalus:33359] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x79e68b]
[pharsalus:33359] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7a016c]
[pharsalus:33359] [11] ../../../lmp_openmpi(main+0x49) [0x7ae0f9]
[pharsalus:33359] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:33359] [13] ../../../lmp_openmpi() [0x53a009]
[pharsalus:33359] *** End of error message ***
[pharsalus:33363] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:33363] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:33363] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:33363] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:33363] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:33363] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:33363] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:33363] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x694a60]
[pharsalus:33363] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6bcc29]
[pharsalus:33363] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x79e68b]
[pharsalus:33363] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7a016c]
[pharsalus:33363] [11] ../../../lmp_openmpi(main+0x49) [0x7ae0f9]
[pharsalus:33363] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:33363] [13] ../../../lmp_openmpi() [0x53a009]
[pharsalus:33363] *** End of error message ***
[pharsalus:01262] *** Process received signal ***
[pharsalus:01262] Signal: Aborted (6)
[pharsalus:01262] Signal code: (-6)
[pharsalus:01257] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:01257] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:01257] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:01257] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:01257] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:01257] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:01257] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:01257] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x697000]
[pharsalus:01257] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x691659]
[pharsalus:01257] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x79fe8b]
[pharsalus:01257] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7a196c]
[pharsalus:01257] [11] ../../../lmp_openmpi(main+0x49) [0x7af929]
[pharsalus:01257] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:01257] [13] ../../../lmp_openmpi() [0x53b429]
[pharsalus:01257] *** End of error message ***
[pharsalus:01262] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:01262] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:01262] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:01262] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:01262] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:01262] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:01262] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:01262] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x697000]
[pharsalus:01262] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x691659]
[pharsalus:01262] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x79fe8b]
[pharsalus:01262] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7a196c]
[pharsalus:01262] [11] ../../../lmp_openmpi(main+0x49) [0x7af929]
[pharsalus:01262] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:01262] [13] ../../../lmp_openmpi() [0x53b429]
[pharsalus:01262] *** End of error message ***
--------------------------------------------------------------------------
mpirun noticed that process rank 3 with PID 33367 on node pharsalus exited on signal 6 (Aborted).
mpirun noticed that process rank 1 with PID 1257 on node pharsalus exited on signal 6 (Aborted).
--------------------------------------------------------------------------
2 total processes killed (some possibly by mpirun during cleanup)