Project ID: plumID:21.035
Stderr for source: CmuMD-NaCl/flat-plumed.dat
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WARNING: using a legacy ActionRegister.h include path, please use <<#include "core/ActionRegister.h">>
In file included from /home/runner/opt/include/plumed_master/colvar/../core/../tools/Tools.h:27,
from /home/runner/opt/include/plumed_master/colvar/../core/Action.h:28,
from /home/runner/opt/include/plumed_master/colvar/../core/ActionAtomistic.h:25,
from /home/runner/opt/include/plumed_master/colvar/../core/Colvar.h:25,
from /home/runner/opt/include/plumed_master/colvar/Colvar.h:24,
from Cmumd.m6mUHZ.cpp:22:
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Tensor.h:98: warning: ignoring ‘#pragma acc enter’ [-Wunknown-pragmas]
98 | #pragma acc enter data copyin(this[0:1], d, d[0:n*m-1])
|
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Tensor.h:102: warning: ignoring ‘#pragma acc exit’ [-Wunknown-pragmas]
102 | #pragma acc exit data delete( d[0:n*m-1], d, this[0:1])
|
In file included from /home/runner/opt/include/plumed_master/colvar/../core/ActionAtomistic.h:27:
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Pbc.h:94: warning: ignoring ‘#pragma acc routine’ [-Wunknown-pragmas]
94 | #pragma acc routine seq
|
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Pbc.h:100: warning: ignoring ‘#pragma acc routine’ [-Wunknown-pragmas]
100 | #pragma acc routine seq
|
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Pbc.h:102: warning: ignoring ‘#pragma acc routine’ [-Wunknown-pragmas]
102 | #pragma acc routine seq
|
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Pbc.h:108: warning: ignoring ‘#pragma acc routine’ [-Wunknown-pragmas]
108 | #pragma acc routine seq
|
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Pbc.h:112: warning: ignoring ‘#pragma acc routine’ [-Wunknown-pragmas]
112 | #pragma acc routine seq
|
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Pbc.h:116: warning: ignoring ‘#pragma acc routine’ [-Wunknown-pragmas]
116 | #pragma acc routine seq
|
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Pbc.h:120: warning: ignoring ‘#pragma acc routine’ [-Wunknown-pragmas]
120 | #pragma acc routine seq
|
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Pbc.h:123: warning: ignoring ‘#pragma acc routine’ [-Wunknown-pragmas]
123 | #pragma acc routine seq
|
In file included from /home/runner/opt/include/plumed_master/colvar/../core/Colvar.h:27:
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Matrix.h:100: warning: ignoring ‘#pragma acc enter’ [-Wunknown-pragmas]
100 | #pragma acc enter data copyin(this[0:1],sz,data[0:sz])
|
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Matrix.h:103: warning: ignoring ‘#pragma acc exit’ [-Wunknown-pragmas]
103 | #pragma acc exit data delete(data[0:sz],sz,this[0:1])
|
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Matrix.h:117: warning: ignoring ‘#pragma acc enter’ [-Wunknown-pragmas]
117 | #pragma acc enter data copyin(this[0:1])
|
/home/runner/opt/include/plumed_master/colvar/../core/../tools/Matrix.h:123: warning: ignoring ‘#pragma acc exit’ [-Wunknown-pragmas]
123 | #pragma acc exit data delete( this[0:1])
|
Cmumd.m6mUHZ.cpp: In member function ‘virtual void PLMD::colvar::CmuMD::calculate()’:
Cmumd.m6mUHZ.cpp:290:14: error: invalid use of incomplete type ‘class PLMD::Communicator’
290 |       stride=comm.Get_size();  //Number of processes
|              ^~~~
In file included from /home/runner/opt/include/plumed_master/colvar/../core/../tools/OFile.h:25,
from /home/runner/opt/include/plumed_master/colvar/../core/../tools/Log.h:25,
from /home/runner/opt/include/plumed_master/colvar/../core/Action.h:30:
/home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’
29 | class Communicator;
|       ^~~~~~~~~~~~
Cmumd.m6mUHZ.cpp:291:12: error: invalid use of incomplete type ‘class PLMD::Communicator’
291 |       rank=comm.Get_rank(); //Rank of present process
|            ^~~~
/home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’
29 | class Communicator;
|       ^~~~~~~~~~~~
Cmumd.m6mUHZ.cpp:392:7: error: invalid use of incomplete type ‘class PLMD::Communicator’
392 |       comm.Sum(histz);
|       ^~~~
/home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’
29 | class Communicator;
|       ^~~~~~~~~~~~
Cmumd.m6mUHZ.cpp:393:7: error: invalid use of incomplete type ‘class PLMD::Communicator’
393 |       comm.Sum(com_solv);
|       ^~~~
/home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’
29 | class Communicator;
|       ^~~~~~~~~~~~
Cmumd.m6mUHZ.cpp:644:7: error: invalid use of incomplete type ‘class PLMD::Communicator’
644 |       comm.Sum(deriv);
|       ^~~~
/home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’
29 | class Communicator;
|       ^~~~~~~~~~~~
Cmumd.m6mUHZ.cpp:645:7: error: invalid use of incomplete type ‘class PLMD::Communicator’
645 |       comm.Sum(n_CR);
|       ^~~~
/home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’
29 | class Communicator;
|       ^~~~~~~~~~~~
Cmumd.m6mUHZ.cpp:646:7: error: invalid use of incomplete type ‘class PLMD::Communicator’
646 |       comm.Sum(virial);
|       ^~~~
/home/runner/opt/include/plumed_master/colvar/../core/../tools/FileBase.h:29:7: note: forward declaration of ‘class PLMD::Communicator’
29 | class Communicator;
|       ^~~~~~~~~~~~
terminate called after throwing an instance of 'PLMD::Plumed::ExceptionError'
what():
(core/PlumedMain.cpp:1502) void PLMD::PlumedMain::load(const std::string&)
An error happened while executing command env PLUMED_ROOT='/home/runner/opt/lib/plumed_master' PLUMED_VERSION='2.11.0-dev' PLUMED_HTMLDIR='/home/runner/opt/share/doc/plumed_master' PLUMED_INCLUDEDIR='/home/runner/opt/include' PLUMED_PROGRAM_NAME='plumed_master' PLUMED_IS_INSTALLED='yes' "/home/runner/opt/lib/plumed_master"/scripts/mklib.sh -n -o ./Cmumd.2.11.0-dev.so Cmumd.cpp

[pkrvmxyh4eaekms:11817] *** Process received signal ***
[pkrvmxyh4eaekms:11817] Signal: Aborted (6)
[pkrvmxyh4eaekms:11817] Signal code:  (-6)
[pkrvmxyh4eaekms:11817] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x45330)[0x7ff9cb845330]
[pkrvmxyh4eaekms:11817] [ 1] /lib/x86_64-linux-gnu/libc.so.6(pthread_kill+0x11c)[0x7ff9cb89eb2c]
[pkrvmxyh4eaekms:11817] [ 2] /lib/x86_64-linux-gnu/libc.so.6(gsignal+0x1e)[0x7ff9cb84527e]
[pkrvmxyh4eaekms:11817] [ 3] /lib/x86_64-linux-gnu/libc.so.6(abort+0xdf)[0x7ff9cb8288ff]
[pkrvmxyh4eaekms:11817] [ 4] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xa5ff5)[0x7ff9cbca5ff5]
[pkrvmxyh4eaekms:11817] [ 5] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xbb0da)[0x7ff9cbcbb0da]
[pkrvmxyh4eaekms:11817] [ 6] /lib/x86_64-linux-gnu/libstdc++.so.6(_ZSt10unexpectedv+0x0)[0x7ff9cbca5a55]
[pkrvmxyh4eaekms:11817] [ 7] /lib/x86_64-linux-gnu/libstdc++.so.6(+0xa5a6f)[0x7ff9cbca5a6f]
[pkrvmxyh4eaekms:11817] [ 8] plumed_master(+0x146dd)[0x56543a5da6dd]
[pkrvmxyh4eaekms:11817] [ 9] /lib/x86_64-linux-gnu/libc.so.6(+0x2a1ca)[0x7ff9cb82a1ca]
[pkrvmxyh4eaekms:11817] [10] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0x8b)[0x7ff9cb82a28b]
[pkrvmxyh4eaekms:11817] [11] plumed_master(+0x15365)[0x56543a5db365]
[pkrvmxyh4eaekms:11817] *** End of error message ***