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Old   March 2, 2022, 05:54
Default An error occurred running the code
  #1
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shuqichang
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Sorry to bother you, I have some problems in ubuntu terminal.
I can't do the last step.
When I enter the code, it appears as follows:

changshuqi@LAPTOP-VF066KCK:~/test1$ mpirun -n 4 REEF3D
--------------------------------------------------------------------------
WARNING: Linux kernel CMA support was requested via the
btl_vader_single_copy_mechanism MCA variable, but CMA support is
not available due to restrictive ptrace settings.

The vader shared memory BTL will fall back on another single-copy
mechanism if one is available. This may result in lower performance.

Local host: LAPTOP-VF066KCK
--------------------------------------------------------------------------

REEF3D (c) 2008-2021 Hans Bihs

:: Open-Source Hydrodynamics

v_211130

read ctrl

REEF3D::CFD

[LAPTOP-VF066KCK:00101] 3 more processes have sent help message help-btl-vader.txt / cma-permission-denied
[LAPTOP-VF066KCK:00101] Set MCA parameter "orte_base_help_aggregate" to 0 to see all help / error messages
initialize fdm
starting ini
creating objects
[LAPTOP-VF066KCK:00105] *** Process received signal ***
[LAPTOP-VF066KCK:00105] Signal: Segmentation fault (11)
[LAPTOP-VF066KCK:00105] Signal code: Invalid permissions (2)
[LAPTOP-VF066KCK:00105] Failing at address: 0x7f9c72de1000
[LAPTOP-VF066KCK:00106] *** Process received signal ***
[LAPTOP-VF066KCK:00106] Signal: Segmentation fault (11)
[LAPTOP-VF066KCK:00106] Signal code: Invalid permissions (2)
[LAPTOP-VF066KCK:00106] Failing at address: 0x7f82dacff000
[LAPTOP-VF066KCK:00108] *** Process received signal ***
[LAPTOP-VF066KCK:00108] Signal: Segmentation fault (11)
[LAPTOP-VF066KCK:00108] Signal code: Invalid permissions (2)
[LAPTOP-VF066KCK:00108] Failing at address: 0x7f7a63c35000
[LAPTOP-VF066KCK:00106] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x46210)[0x7f847f8e6210]
[LAPTOP-VF066KCK:00106] [ 1] /lib/x86_64-linux-gnu/libc.so.6(+0x18ead1)[0x7f847fa2ead1]
[LAPTOP-VF066KCK:00106] [ 2] REEF3D(+0x4b4d78)[0x7f8480447d78]
[LAPTOP-VF066KCK:00106] [ 3] REEF3D(+0x2b83c2)[0x7f848024b3c2]
[LAPTOP-VF066KCK:00106] [ 4] REEF3D(+0x150ce2)[0x7f84800e3ce2]
[LAPTOP-VF066KCK:00106] [ 5] REEF3D(+0x5ffe8)[0x7f847fff2fe8]
[LAPTOP-VF066KCK:00106] [ 6] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf3)[0x7f847f8c70b3]
[LAPTOP-VF066KCK:00106] [ 7] REEF3D(+0x6bb4e)[0x7f847fffeb4e]
[LAPTOP-VF066KCK:00106] *** End of error message ***
[LAPTOP-VF066KCK:00108] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x46210)[0x7f7c076c6210]
[LAPTOP-VF066KCK:00108] [ 1] /lib/x86_64-linux-gnu/libc.so.6(+0x18ead1)[0x7f7c0780ead1]
[LAPTOP-VF066KCK:00108] [ 2] REEF3D(+0x4b4d78)[0x7f7c08229d78]
[LAPTOP-VF066KCK:00108] [ 3] REEF3D(+0x2b83c2)[0x7f7c0802d3c2]
[LAPTOP-VF066KCK:00108] [ 4] REEF3D(+0x150ce2)[0x7f7c07ec5ce2]
[LAPTOP-VF066KCK:00108] [ 5] REEF3D(+0x5ffe8)[0x7f7c07dd4fe8]
[LAPTOP-VF066KCK:00108] [ 6] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf3)[0x7f7c076a70b3]
[LAPTOP-VF066KCK:00108] [ 7] REEF3D(+0x6bb4e)[0x7f7c07de0b4e]
[LAPTOP-VF066KCK:00108] *** End of error message ***
[LAPTOP-VF066KCK:00105] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x46210)[0x7f9e17b56210]
[LAPTOP-VF066KCK:00105] [ 1] /lib/x86_64-linux-gnu/libc.so.6(+0x18ead1)[0x7f9e17c9ead1]
[LAPTOP-VF066KCK:00105] [ 2] REEF3D(+0x4b4d78)[0x7f9e186b9d78]
[LAPTOP-VF066KCK:00105] [ 3] REEF3D(+0x2b83c2)[0x7f9e184bd3c2]
[LAPTOP-VF066KCK:00105] [ 4] REEF3D(+0x150ce2)[0x7f9e18355ce2]
[LAPTOP-VF066KCK:00105] [ 5] REEF3D(+0x5ffe8)[0x7f9e18264fe8]
[LAPTOP-VF066KCK:00105] [ 6] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf3)[0x7f9e17b370b3]
[LAPTOP-VF066KCK:00105] [ 7] REEF3D(+0x6bb4e)[0x7f9e18270b4e]
[LAPTOP-VF066KCK:00105] *** End of error message ***
[LAPTOP-VF066KCK:00107] *** Process received signal ***
[LAPTOP-VF066KCK:00107] Signal: Segmentation fault (11)
[LAPTOP-VF066KCK:00107] Signal code: Invalid permissions (2)
[LAPTOP-VF066KCK:00107] Failing at address: 0x7fcceb435000
[LAPTOP-VF066KCK:00107] [ 0] /lib/x86_64-linux-gnu/libc.so.6(+0x46210)[0x7fce90e16210]
[LAPTOP-VF066KCK:00107] [ 1] /lib/x86_64-linux-gnu/libc.so.6(+0x18ead1)[0x7fce90f5ead1]
[LAPTOP-VF066KCK:00107] [ 2] REEF3D(+0x4b4d78)[0x7fce91977d78]
[LAPTOP-VF066KCK:00107] [ 3] REEF3D(+0x2b83c2)[0x7fce9177b3c2]
[LAPTOP-VF066KCK:00107] [ 4] REEF3D(+0x150ce2)[0x7fce91613ce2]
[LAPTOP-VF066KCK:00107] [ 5] REEF3D(+0x5ffe8)[0x7fce91522fe8]
[LAPTOP-VF066KCK:00107] [ 6] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf3)[0x7fce90df70b3]
[LAPTOP-VF066KCK:00107] [ 7] REEF3D(+0x6bb4e)[0x7fce9152eb4e]
[LAPTOP-VF066KCK:00107] *** End of error message ***
--------------------------------------------------------------------------
Primary job terminated normally, but 1 process returned
a non-zero exit code. Per user-direction, the job has been aborted.
--------------------------------------------------------------------------
--------------------------------------------------------------------------
mpirun noticed that process rank 0 with PID 0 on node LAPTOP-VF066KCK exited on signal 11 (Segmentation fault).
--------------------------------------------------------------------------
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Old   March 2, 2022, 11:29
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  #2
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Arun Kamath
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Hi,
Difficult to analyse the problem without more information.
But first,
Have you run
Code:
./DiveMESH
and has it resulted in the production of files grid-00001.dat, 0002.dat etc?

Next
use the command
Code:
ll
see if reef3d has
Code:
-rwxr-xr-x
in front of it.

Finally, ensure you have the latest (and compatible) DiveMESH and REEF3D versions.

If none of the above work, please upload your input files.
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Old   March 3, 2022, 04:13
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shuqichang
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Thank you very much for the methods you provided. I checked them one by one and finally found that the problem was grid division. My computer could not support too many grids. I finally modified it and it worked. Thank you for your help. Best wishes to you!
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Old   March 3, 2022, 06:21
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I am glad that you found the solution!
Good luck ahead
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