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ATC version 2.0, date: Aug21

Browse Source 
git-svn-id: svn://svn.icms.temple.edu/lammps-ro/trunk@10639 f3b2605a-c512-4ea7-a41b-209d697bcdaa
This commit is contained in:
rjones
2013-08-21 23:06:11 +00:00
parent d77ab2f96a
commit b22a8a7b61
91 changed files with 4603 additions and 4673 deletions
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163
examples/USER/atc/mesh/gaussianIC2d_hex_uniform.screen
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@ -1,4 +1,4 @@
LAMMPS (14 Aug 2013)
LAMMPS (24 Aug 2013)
units real
atom_style atomic
@ -33,92 +33,93 @@ group internal region mdInternal
fix AtC internal atc two_temperature Ar_ttm.mat
ATC: constructing two_temperature coupling with parameter file Ar_ttm.mat
terminate called after throwing an instance of ' ATC: peratom PE compute created with ID: 3
ATC: version 2.0
ATC: peratom PE compute created with ID: 3
terminate called after throwing an instance of 'terminate called after throwing an instance of 'ATC::ATC_Error'
[pharsalus:44875] *** Process received signal ***
[pharsalus:44875] Signal: Aborted (6)
[pharsalus:44875] Signal code: (-6)
terminate called after throwing an instance of 'ATC::ATC_Error'
[pharsalus:44881] *** Process received signal ***
[pharsalus:44881] Signal: Aborted (6)
[pharsalus:44881] Signal code: (-6)
terminate called after throwing an instance of 'ATC::ATC_Error'
[pharsalus:44889] *** Process received signal ***
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
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.
[pharsalus:44889] Signal: Aborted (6)
[pharsalus:44889] Signal code: (-6)
ATC::ATC_Error'
[pharsalus:35393] *** Process received signal ***
[pharsalus:35393] Signal: Aborted (6)
[pharsalus:35393] Signal code: (-6)
[pharsalus:35393] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:35393] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:35393] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:35393] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:35393] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:35393] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:35393] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:35393] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x68b090]
[pharsalus:35393] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6b31d9]
[pharsalus:35393] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x792edb]
[pharsalus:35393] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7949bc]
[pharsalus:35393] [11] ../../../lmp_openmpi(main+0x49) [0x7a28f9]
[pharsalus:35393] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:35393] [13] ../../../lmp_openmpi() [0x537209]
[pharsalus:35393] *** End of error message ***
ATC: P1, ERROR: mesh file is of unknown type.
ATC: P2, ERROR: mesh file is of unknown type.
terminate called after throwing an instance of 'ATC::ATC_Error'
terminate called after throwing an instance of 'ATC::ATC_Error'
[pharsalus:35404] *** Process received signal ***
[pharsalus:35404] Signal: Aborted (6)
[pharsalus:35404] Signal code: (-6)
[pharsalus:35396] *** Process received signal ***
[pharsalus:35396] Signal: Aborted (6)
[pharsalus:35396] Signal code: (-6)
[pharsalus:35404] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:35404] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:35404] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:35404] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:35404] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:35404] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:35404] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:35404] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x68b090]
[pharsalus:35404] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6b31d9]
[pharsalus:35404] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x792edb]
[pharsalus:35404] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7949bc]
[pharsalus:35404] [11] ../../../lmp_openmpi(main+0x49) [0x7a28f9]
[pharsalus:35404] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:35404] [13] ../../../lmp_openmpi() [0x537209]
[pharsalus:35404] *** End of error message ***
[pharsalus:35396] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:35396] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:35396] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:35396] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:35396] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:35396] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:35396] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:35396] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x68b090]
[pharsalus:35396] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6b31d9]
[pharsalus:35396] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x792edb]
[pharsalus:35396] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7949bc]
[pharsalus:35396] [11] ../../../lmp_openmpi(main+0x49) [0x7a28f9]
[pharsalus:35396] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:35396] [13] ../../../lmp_openmpi() [0x537209]
[pharsalus:35396] *** End of error message ***
ATC: P3, ERROR: mesh file is of unknown type.
terminate called after throwing an instance of 'ATC::ATC_Error'
[pharsalus:35408] *** Process received signal ***
[pharsalus:35408] Signal: Aborted (6)
[pharsalus:35408] Signal code: (-6)
[pharsalus:35408] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:35408] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:35408] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:35408] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:35408] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:35408] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:35408] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:35408] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x68b090]
[pharsalus:35408] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6b31d9]
[pharsalus:35408] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x792edb]
[pharsalus:35408] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7949bc]
[pharsalus:35408] [11] ../../../lmp_openmpi(main+0x49) [0x7a28f9]
[pharsalus:35408] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:35408] [13] ../../../lmp_openmpi() [0x537209]
[pharsalus:35408] *** End of error message ***
[pharsalus:44868] *** Process received signal ***
[pharsalus:44868] Signal: Aborted (6)
[pharsalus:44868] Signal code: (-6)
[pharsalus:44875] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:44881] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:44881] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:44881] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:44881] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:44881] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:44881] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:44881] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:44881] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x68e130]
[pharsalus:44881] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6b6279]
[pharsalus:44881] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x7969eb]
[pharsalus:44881] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7984cc]
[pharsalus:44881] [11] ../../../lmp_openmpi(main+0x49) [0x7a6409]
[pharsalus:44881] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:44881] [13] ../../../lmp_openmpi() [0x538bc9]
[pharsalus:44881] *** End of error message ***
[pharsalus:44875] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:44889] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:44875] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:44875] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:44875] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:44875] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:44875] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:44875] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x68e130]
[pharsalus:44875] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6b6279]
[pharsalus:44875] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x7969eb]
[pharsalus:44875] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7984cc]
[pharsalus:44875] [11] ../../../lmp_openmpi(main+0x49) [0x7a6409]
[pharsalus:44875] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:44875] [13] ../../../lmp_openmpi() [0x538bc9]
[pharsalus:44875] *** End of error message ***
[pharsalus:44889] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:44868] [ 0] /lib64/libpthread.so.0() [0x3e7ce0f500]
[pharsalus:44868] [ 1] /lib64/libc.so.6(gsignal+0x35) [0x3e7c2328a5]
[pharsalus:44868] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:44868] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:44868] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:44868] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:44868] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:44868] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x68e130]
[pharsalus:44868] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6b6279]
[pharsalus:44868] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x7969eb]
[pharsalus:44868] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7984cc]
[pharsalus:44868] [11] ../../../lmp_openmpi(main+0x49) [0x7a6409]
[pharsalus:44868] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:44868] [13] ../../../lmp_openmpi() [0x538bc9]
[pharsalus:44868] *** End of error message ***
[pharsalus:44889] [ 2] /lib64/libc.so.6(abort+0x175) [0x3e7c234085]
[pharsalus:44889] [ 3] /usr/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x12d) [0x3e83ebea5d]
[pharsalus:44889] [ 4] /usr/lib64/libstdc++.so.6() [0x3e83ebcbe6]
[pharsalus:44889] [ 5] /usr/lib64/libstdc++.so.6() [0x3e83ebcc13]
[pharsalus:44889] [ 6] /usr/lib64/libstdc++.so.6(__cxa_rethrow+0x46) [0x3e83ebcc96]
[pharsalus:44889] [ 7] ../../../lmp_openmpi(_ZN9LAMMPS_NS6FixATC12modify_paramEiPPc+0x70) [0x68e130]
[pharsalus:44889] [ 8] ../../../lmp_openmpi(_ZN9LAMMPS_NS3Fix13modify_paramsEiPPc+0xb9) [0x6b6279]
[pharsalus:44889] [ 9] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input15execute_commandEv+0xcab) [0x7969eb]
[pharsalus:44889] [10] ../../../lmp_openmpi(_ZN9LAMMPS_NS5Input4fileEv+0x63c) [0x7984cc]
[pharsalus:44889] [11] ../../../lmp_openmpi(main+0x49) [0x7a6409]
[pharsalus:44889] [12] /lib64/libc.so.6(__libc_start_main+0xfd) [0x3e7c21ecdd]
[pharsalus:44889] [13] ../../../lmp_openmpi() [0x538bc9]
[pharsalus:44889] *** End of error message ***
--------------------------------------------------------------------------
mpirun noticed that process rank 2 with PID 35404 on node pharsalus exited on signal 6 (Aborted).
mpirun noticed that process rank 2 with PID 44881 on node pharsalus exited on signal 6 (Aborted).
--------------------------------------------------------------------------