Error in ww3_shel execution #1383

jaslanli · 2025-03-03T20:21:21Z

jaslanli
Mar 3, 2025

Hi,

While running ./ww3_shel | tee ww3_shel.out command, execution stops without reaching to the end (stop date) and I receive following error:

  Running model without input fields
 --------------------------------------------------

  WAVEWATCH III calculating for 2024/09/02 00:00:00 UTC at 16:44:06
  WAVEWATCH III calculating for 2024/09/02 00:04:10 UTC at 16:44:08
  WAVEWATCH III calculating for 2024/09/02 00:08:20 UTC at 16:45:49
  WAVEWATCH III calculating for 2024/09/02 00:12:30 UTC at 16:52:19

Program received signal SIGSEGV: Segmentation fault - invalid memory reference.

Backtrace for this error:
#0  0x7fc591df6e59 in ???
#1  0x7fc591df5e75 in ???
#2  0x7fc59198f32f in ???
#3  0x5604cc6c0045 in __w3src4md_MOD_w3sin4
        at /mnt/c/Users/jaasla/WW3-m2/WW3-m2/model/src/w3src4md.F90:952
#4  0x5604cc6ed16d in __w3srcemd_MOD_w3srce
        at /mnt/c/Users/jaasla/WW3-m2/WW3-m2/model/src/w3srcemd.F90:1068
#5  0x5604cc683901 in __w3wavemd_MOD_w3wave
        at /mnt/c/Users/jaasla/WW3-m2/WW3-m2/model/src/w3wavemd.F90:2257
#6  0x5604cc5818c8 in w3shel
        at /mnt/c/Users/jaasla/WW3-m2/WW3-m2/model/src/ww3_shel.F90:1997
#7  0x5604cc57c86e in main
        at /mnt/c/Users/jaasla/WW3-m2/WW3-m2/model/src/ww3_shel.F90:253

I tried to debug it but couldn't find any solution yet. Can someone help to understand what is this error about?

Thank you!

Answered by mickaelaccensi

Mar 10, 2025

the issue comes from your grid ! looking at your ww3_grid.out, the longitude and latitude ranges are 0 :

       Increments           (deg.) :    0.0000    0.0000
       Longitude range      (deg.) :    0.0000    0.0000
       Latitude range       (deg.) :    0.0000    0.0000

You need to correctly do your grid first

View full answer

mickaelaccensi · 2025-03-04T12:05:45Z

mickaelaccensi
Mar 4, 2025
Collaborator

Dear jaslanli,

would it be due to the allocated memory which is not enough. Could you try to increase the memory or to deactivate additional forcing fields like current or level to reduce memory usage.

1 reply

jaslanli Mar 4, 2025
Author

Hi Mickael,

Thanks for reply.
I tried deactivating all input fields except Wave height, but still the same error.
I will try running on increased memory - using HPC to verify if it is the cause.

$ ./ww3_shel | tee ww3_shel.out

                     *** WAVEWATCH III Program shell ***
               ===============================================


  Input fields :
 --------------------------------------------------
       ice param. 1   ---/NO
       ice param. 2   ---/NO
       ice param. 3   ---/NO
       ice param. 4   ---/NO
       ice param. 5   ---/NO
       mud density    ---/NO
       mud thkness    ---/NO
       mud viscos.    ---/NO
       water levels   ---/NO
       currents       ---/NO
       winds          ---/NO
       ice fields     ---/NO
       momentum       ---/NO
       air density    ---/NO
       mean param.    ---/NO
       1D spectra     ---/NO
       2D spectra     ---/NO

            Fields   : Wave height
            Fields   : no fields defined

  Initializations :
 --------------------------------------------------

  Time interval :
 --------------------------------------------------
       Starting time : 2010/09/02 00:00:00 UTC
       Ending time   : 2010/09/02 00:25:00 UTC


  Output requests :
 --------------------------------------------------
       No dedicated output process, any file system.

       Type 1 : Fields of mean wave parameters
      -----------------------------------------
            From     : 2010/09/02 00:00:00 UTC
            To       : 2010/09/02 00:25:00 UTC
            Interval :            01:00:00

            output dates out of run dates : Point output deactivated
            output dates out of run dates : Track point output deactivated
            output dates out of run dates : Restart files deactivated
            output dates out of run dates : Nesting data deactivated
            output dates out of run dates : Partitioned wave field data deactivated
            output dates out of run dates : Restart files second request deactivated
       Wave model ...

  Running model without input fields
 --------------------------------------------------

  WAVEWATCH III calculating for 2010/09/02 00:00:00 UTC at 16:39:30
  WAVEWATCH III calculating for 2010/09/02 00:04:10 UTC at 16:39:31
  WAVEWATCH III calculating for 2010/09/02 00:08:20 UTC at 16:41:24
  WAVEWATCH III calculating for 2010/09/02 00:12:30 UTC at 16:47:27

Program received signal SIGSEGV: Segmentation fault - invalid memory reference.

Backtrace for this error:
#0  0x7f94d56ebe59 in ???
#1  0x7f94d56eae75 in ???
#2  0x7f94d528432f in ???
#3  0x55ed05947045 in __w3src4md_MOD_w3sin4
        at /mnt/c/Users/jaasla/WW3-m2/WW3-m2/model/src/w3src4md.F90:952
#4  0x55ed0597416d in __w3srcemd_MOD_w3srce
        at /mnt/c/Users/jaasla/WW3-m2/WW3-m2/model/src/w3srcemd.F90:1068
#5  0x55ed0590a901 in __w3wavemd_MOD_w3wave
        at /mnt/c/Users/jaasla/WW3-m2/WW3-m2/model/src/w3wavemd.F90:2257
#6  0x55ed058088c8 in w3shel
        at /mnt/c/Users/jaasla/WW3-m2/WW3-m2/model/src/ww3_shel.F90:1997
#7  0x55ed0580386e in main
        at /mnt/c/Users/jaasla/WW3-m2/WW3-m2/model/src/ww3_shel.F90:253

mickaelaccensi · 2025-03-04T15:08:16Z

mickaelaccensi
Mar 4, 2025
Collaborator

can you share your ww3_grid.inp or ww3_grid.nml ? and the output of ww3_grid ?

0 replies

jaslanli · 2025-03-04T15:23:36Z

jaslanli
Mar 4, 2025
Author

I'm adding a zip folder with ww3_grid files.
Baltic_files.zip

Also, I've tried to apply the same steps for ZA-7M grid which is described in Tutorial, the same error in ww3_shel execution.
ZA-7M.zip

0 replies

mickaelaccensi · 2025-03-04T15:29:43Z

mickaelaccensi
Mar 4, 2025
Collaborator

can you try changing in ww3_grid.nml and rerunning ww3_grid, ww3_shel :

&TIMESTEPS_NML
  TIMESTEPS%DTMAX        =  1200.
  TIMESTEPS%DTXY         =  400.
  TIMESTEPS%DTKTH        =  200.
  TIMESTEPS%DTMIN        =  1.
/

6 replies

mickaelaccensi Mar 4, 2025
Collaborator

so it is probably that you need more memory allocated for your run

jaslanli Mar 4, 2025
Author

Thanks. I will try to ensure running on more memory allocated environment, and update here about results.

jaslanli Mar 5, 2025
Author

I tried running on more memory allocated environment (HPC), but still the same issue.

Program received signal SIGSEGV: Segmentation fault - invalid memory reference.

Backtrace for this error:
#0  0x7f1b880238a0 in ???
#1  0x7f1b88022a45 in ???
#2  0x7f1b86e3e72f in ???
#3  0x52e12b in __w3src4md_MOD_w3sin4
        at /home/jas/WW3/model/src/w3src4md.F90:952
#4  0x554d3b in __w3srcemd_MOD_w3srce
        at /home/jas/WW3/model/src/w3srcemd.F90:1068
#5  0x4f6c9a in __w3wavemd_MOD_w3wave
        at /home/jas/WW3/model/src/w3wavemd.F90:2247
#6  0x409c83 in w3shel
        at /home/jas/WW3/model/src/ww3_shel.F90:1989
#7  0x403c6c in main
        at /home/jas/WW3/model/src/ww3_shel.F90:253

mickaelaccensi Mar 6, 2025
Collaborator

can you try with the latest version of the develop branch ?
also you can compile WW3 using debug option to get more information about the issue :
cmake .. -DCMAKE_BUILD_TYPE=Debug -DSWITCH=Ifremer2

jaslanli Mar 6, 2025
Author

I started to use the latest version of develop branch.

Also, I used cmake .. -DCMAKE_BUILD_TYPE=Debug -DSWITCH=Ifremer2 for compilation, but this time strangely even the step before ww3_shel (./ww3_strt | tee ww3_strt.out) failed as below.

$ ./ww3_strt | tee ww3_strt.out

Program received signal SIGFPE: Floating-point exception - erroneous arithmetic operation.

Backtrace for this error:
#0  0x7f0c8b8238a0 in ???
#1  0x7f0c8b822a45 in ???
#2  0x7f0c8a63e72f in ???
#3  0x7f0c8a4ca92d in ???
#4  0x7f0c8a4ac26e in ???
#5  0x7f0c8b662846 in hwloc__libxml2_prepare_export
        at /home/admin/install/mvapich2-2.3.7-1/contrib/hwloc_v1/src/topology-xml-libxml.c:398
#6  0x7f0c8b6629af in hwloc_libxml_export_file
        at /home/admin/install/mvapich2-2.3.7-1/contrib/hwloc_v1/src/topology-xml-libxml.c:429
#7  0x7f0c8b660239 in hwloc_topology_export_xml
        at /home/admin/install/mvapich2-2.3.7-1/contrib/hwloc_v1/src/topology-xml.c:1505
#8  0x7f0c8b6466b4 in smpi_load_hwloc_topology
        at src/mpid/ch3/channels/common/src/affinity/hwloc_bind.c:2578
#9  0x7f0c8b5e051d in mv2_get_arch_type
        at src/mpid/ch3/channels/common/src/detect/arch/mv2_arch_detect.c:507
#10  0x7f0c8b647c0b in MPIDI_CH3I_set_affinity
        at src/mpid/ch3/channels/common/src/affinity/hwloc_bind.c:3380
#11  0x7f0c8b55d884 in MPID_Init
        at src/mpid/ch3/src/mpid_init.c:399
#12  0x7f0c8b48df29 in MPIR_Init_thread
        at src/mpi/init/initthread.c:490
#13  0x7f0c8b48d532 in PMPI_Init
        at src/mpi/init/init.c:234
#14  0x7f0c8bbc948e in pmpi_init_
        at src/binding/fortran/mpif_h/initf.c:275
#15  0x402c64 in w3strt
        at /home/javid.aslanli/WW3/model/src/ww3_strt.F90:326
#16  0x40d820 in main
        at /home/javid.aslanli/WW3/model/src/ww3_strt.F90:210

In my current configuration I'm able to run all steps described in INOUT Tutorial. But, for my project and also for Gridgen tutorial, it just gets stuck in ww3_shel execution.

mickaelaccensi · 2025-03-07T08:18:48Z

mickaelaccensi
Mar 7, 2025
Collaborator

ww3_strt and ww3_shel are compiled with MPI so 2 solutions :
-run them with mpirun -n 4 ww3_strt
-recompile only program with switch file containing SHRD instead of DIST MPI and then run them as ./ww3_strt

same for ww3_shel

to recompile only a program with cmake, use the option : --target ww3_shel

1 reply

jaslanli Mar 9, 2025
Author

Recompilation is done with switch file containing SHRD instead of DIST MPI.

./ww3_shel | tee ww3_shel.out execution stopped before finishing as previous times, error message is "SIGFPE: Floating-point exception - erroneous arithmetic operation."

  Running model without input fields
--------------------------------------------------

 WAVEWATCH III calculating for 2024/09/02 00:00:00 UTC at 21:47:45
 WAVEWATCH III calculating for 2024/09/02 00:12:30 UTC at 21:47:49

Program received signal SIGFPE: Floating-point exception - erroneous arithmetic operation.

Backtrace for this error:
#0  0x7f0c38a238a0 in ???
#1  0x7f0c38a22a45 in ???
#2  0x7f0c3863e72f in ???
#3  0x787025 in __w3snl1md_MOD_w3snl1
       at /home/javid.aslanli/WW3/model/src/w3snl1md.F90:402
#4  0x7c53aa in __w3srcemd_MOD_w3srce
       at /home/javid.aslanli/WW3/model/src/w3srcemd.F90:1224
#5  0x6c029a in __w3wavemd_MOD_w3wave
       at /home/javid.aslanli/WW3/model/src/w3wavemd.F90:2247
#6  0x4184fe in w3shel
       at /home/javid.aslanli/WW3/model/src/ww3_shel.F90:1989
#7  0x42696b in main
       at /home/javid.aslanli/WW3/model/src/ww3_shel.F90:253

mickaelaccensi · 2025-03-10T08:51:35Z

mickaelaccensi
Mar 10, 2025
Collaborator

the issue comes from your grid ! looking at your ww3_grid.out, the longitude and latitude ranges are 0 :

       Increments           (deg.) :    0.0000    0.0000
       Longitude range      (deg.) :    0.0000    0.0000
       Latitude range       (deg.) :    0.0000    0.0000

You need to correctly do your grid first

1 reply

jaslanli Mar 12, 2025
Author

I corrected the ww3_grid.nml file and now able to execute ww3-shel. Thanks!

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Error in ww3_shel execution #1383

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