Testing ESMF 8.5.0 release

junwang-noaa commented 10 months ago

Description

The ESMF 8.5.0 was released. We need to test it in ufs-weather-model.

Solution

Alternatives

Related to

uturuncoglu commented 10 months ago

@junwang-noaa JFYI, The PIO library also need to be updated to 2.5.10 to be consistent with the ESMF internal PIO version. If I use 2.5.7 along with ESMF 8.5.0, the cpld_control_p8 build fails with following error,

/work/noaa/epic/role-epic/contrib/orion/hpc-stack/intel-2022.1.2/intel-2022.1.2/impi-2022.1.2/pio/2.5.7/lib/libpioc.a(pioc.c.o): In function `PIOc_iosystem_is_active':
/work/noaa/epic/role-epic/contrib/orion/hpc-stack/src-intel-2022.1.2/pkg/pio-2.5.7/src/clib/pioc.c:97: multiple definition of `PIOc_iosystem_is_active'
/work/noaa/epic/role-epic/contrib/orion/hpc-stack/intel-2022.1.2/intel-2022.1.2/impi-2022.1.2/esmf/8.5.0/lib/libpioc.a(pioc.c.o):/work/noaa/epic/role-epic/contrib/orion/hpc-stack/src-intel-2022.1.2/pkg/v8.5.0/src/Infrastructure/IO/PIO/ParallelIO/src/clib/pioc.c:97: first defined here
/work/noaa/epic/role-epic/contrib/orion/hpc-stack/intel-2022.1.2/intel-2022.1.2/impi-2022.1.2/pio/2.5.7/lib/libpioc.a(pioc.c.o): In function `PIOc_File_is_Open':
/work/noaa/epic/role-epic/contrib/orion/hpc-stack/src-intel-2022.1.2/pkg/pio-2.5.7/src/clib/pioc.c:111: multiple definition of `PIOc_File_is_Open'
/work/noaa/epic/role-epic/contrib/orion/hpc-stack/intel-2022.1.2/intel-2022.1.2/impi-2022.1.2/esmf/8.5.0/lib/libpioc.a(pioc.c.o):/work/noaa/epic/role-epic/contrib/orion/hpc-stack/src-intel-2022.1.2/pkg/v8.5.0/src/Infrastructure/IO/PIO/ParallelIO/src/clib/pioc.c:111: first defined here

uturuncoglu commented 10 months ago

@junwang-noaa I think ESMF build uses internal PIO at this point? Right? If so, other option is building ESMF with external PIO installation but still we need to update PIO to 2.5.10.

junwang-noaa commented 10 months ago

@natalie-perlin We are updating the model to use pio 2.5.10/hdf5 1.14.0/netcdf 4.9.2 today or early next week. Would you please install ESMF 8.5.0 with those updated libraries on orion and hera for us to test ufs weather model. Thanks

natalie-perlin commented 10 months ago

@junwang-noaa -

ESMF/8.5.0 libraries and dependent mapl/2.xx.x-esmf-8.5.0 have been installed on Orion and Hera. Please note that due to a mandatory transition to a new role account (role-epic) on Orion and new space for that account, all the stacks were rebuilt in new location under /work/noaa/epic/role-epic/contrib/orion/.

Orion stack with hdf5/1.14.0, netcdf/4.9.2, pio/2.5.10, (also includes esmf/8.4.0 and mapl built with it) /work/noaa/epic/role-epic/contrib/orion/hpc-stack/intel-2022.1.2_ncdf492

Hera intel: /scratch1/NCEPDEV/nems/role.epic/hpc-stack/libs/intel-2022.1.2_ncdf492/ Hera gnu: /scratch1/NCEPDEV/nems/role.epic/hpc-stack/libs/gnu-9.2_ncdf492

uturuncoglu commented 10 months ago

JFYI, I could able to run the cpld_control_p8 case on Orion with *_ncdf492 modules and ESMF 8.5.0 but aerosol component is giving error like following,

20230804 121636.886 INFO             PET000 UFS Aerosols: Advancing from 2021-03-22T06:00:00 to 2021-03-22T06:12:00
20230804 121654.086 ERROR            PET000 /work/noaa/epic/role-epic/contrib/orion/hpc-stack/src-intel-2022.1.2_ncdf492/pkg/v8.5.0/src/Infrastructure/Base/src/ESMCI_Info.C:830 Info::get(): Key not found (JSON trace will follow): /ESMF/General/GridType
20230804 121654.086 ERROR            PET000 ESMCI_Info.C:832 Info::get() Attribute not set  - [json.exception.out_of_range.403] key 'ESMF' not found
20230804 121654.086 ERROR            PET000 ESMCI_Info.C:836 Info::get() Attribute not set  - Internal subroutine call returned Error
20230804 121654.086 ERROR            PET000 ESMC_InfoCDef.C:601 ESMC_InfoGetCH() Attribute not set  - Internal subroutine call returned Error
20230804 121654.086 ERROR            PET000 ESMF_Info.F90:986 ESMF_InfoGetCH() Attribute not set  - Internal subroutine call returned Error
20230804 121654.086 ERROR            PET000 src/Superstructure/AttributeAPI/interface/ESMF_Attribute.F90:27682 ESMF_AttributeGetObjGridCH() Attribute not set  - Internal subroutine call returned Error
20230804 121654.087 ERROR            PET000 Aerosol_Cap.F90:464 Invalid object  - Passing error in return code
20230804 121654.087 ERROR            PET000 CHM:src/addon/NUOPC/src/NUOPC_ModelBase.F90:2218 Invalid object  - Passing error in return code
20230804 121654.087 ERROR            PET000 UFS Driver Grid Comp:src/addon/NUOPC/src/NUOPC_Driver.F90:3702 Invalid object  - Phase 'RunPhase1' Run for modelComp 3 did not return ESMF_SUCCESS
20230804 121654.087 ERROR            PET000 UFS Driver Grid Comp:src/addon/NUOPC/src/NUOPC_Driver.F90:3940 Invalid object  - Passing error in return code
20230804 121654.087 ERROR            PET000 UFS Driver Grid Comp:src/addon/NUOPC/src/NUOPC_Driver.F90:3617 Invalid object  - Passing error in return code
20230804 121654.087 ERROR            PET000 UFS.F90:403 Invalid object  - Aborting UFS

uturuncoglu commented 10 months ago

@junwang-noaa Let me know if you want me to look at.

junwang-noaa commented 10 months ago

@uturuncoglu The gocart is updated in PR#1745. I ran the cpld_control_gfsv17 on hera with ESMF850 with the branch from PR#1745, the test ran successfully.

uturuncoglu commented 10 months ago

@junwang-noaa Okay. Sorry for false alarm. Maybe my fork is not up-to-date with those changes. It is hard to catch the development. Everything is changing so fast.

junwang-noaa commented 10 months ago

We are committing PR#1745 at this time.

uturuncoglu commented 10 months ago

@junwang-noaa Okay. Then, I'll update my fork after that.

uturuncoglu commented 10 months ago

@junwang-noaa I just wonder if there is some update about testing 8.5.0

junwang-noaa commented 10 months ago

@uturuncoglu I ran full RT test with the ufs WM develop branch (cd8535b2). All the test ran successfully, but 31 out of 249 tests failed. 4 of them failed in post file comparison with the baseline, while other 27 failed in history file comparison. My code is on hera at:

/scratch1/NCEPDEV/nems/Jun.Wang/nems/vlab/20230621/esmf850/repo_20230816/ufs-weather-model/

You can see the log file at: /scratch1/NCEPDEV/nems/Jun.Wang/nems/vlab/20230621/esmf850/repo_20230816/ufs-weather-model/tests/logs/RegressionTests_hera.log

@natalie-perlin @theurich FYI.

uturuncoglu commented 10 months ago

@junwang-noaa I have no access to Hera. So, it would be hard for me to check the logs. Are the tests failed in post file comparison was only 3d files. If so, I saw that issue before in my tests. There could be some kind of interpolation etc. special to 3d files (on pressure level I think) in post processing tool that leads to answer change. In my case, surface files were fine. We know that 8.5.0 has some fix/improvement in some interpolation combination that could lead to answer change. The release notes in here, https://github.com/esmf-org/esmf/releases/tag/v8.5.0

climbfuji commented 9 months ago

Now that the UFS has moved to spack-stack, this testing needs to happen there. We can create a test installation of spack-stack develop in anticipation of the next spack-stack release 1.5.0 (September 8 +/-) that has ESMF 8.5.0 and the mapl version you want to go with (please specify).

Note that although we have parallelio-2.5.10 in spack-stack-1.5.0, it doesn't matter because we use the external parallelio provided by spack-stack, no internal parallelio (that is one of the major improvements I think).

junwang-noaa commented 9 months ago

@climbfuji Currently UFS WM is still using hpc-stack on cheyenne and wcoss2, and using spack-stack on hera/orion/gaea/jet. If you can install ESMF 8.5.0 in spack-stack on hera, we can test it in UFS WM.

climbfuji commented 9 months ago

@junwang-noaa I have a test stack on Hera with ESMF 8.5.0 and MAPL 2.40.3. I am getting errors from mapl in the cmake step that I am currently debugging with @mathomp4.

mathomp4 commented 9 months ago

@junwang-noaa I have a test stack on Hera with ESMF 8.5.0 and MAPL 2.40.3. I am getting errors from mapl in the cmake step that I am currently debugging with @mathomp4.

I have thoughts about this. My fear is that we need to fix up how MAPL handles being installed as a CMake project. Mainly, we aren't propagating the dependencies down so find_package(MAPL) isn't then doing the find_dependency() calls needed.

I have a test branch of MAPL on hotfix/mathomp4/fix-mapl-cmake-package that might fix this...but I'm not sure how you exactly build GOCART in UFS.

I think the equivalent is if you changed GOCART's main CMakeLists.txt file from:

 if (UFS_GOCART)
  find_package (GFTL_SHARED REQUIRED)
  find_package (MAPL REQUIRED)
  include(mapl_acg)

to:

if (UFS_GOCART)
  find_package (GFTL_SHARED REQUIRED)
  find_package (FARGPARSE REQUIRED)
  find_package (PFLOGGER REQUIRED)
  find_package (MAPL REQUIRED)
  include(mapl_acg)

then it might work?

climbfuji commented 9 months ago

Thanks @mathomp4 ! I will try this for fargparse (this particular version doesn't have pflogger).

climbfuji commented 9 months ago

FARGPARSE

That seems tow ork, @mathomp4 . I suggest using this, however:

if (UFS_GOCART)
  find_package (GFTL_SHARED REQUIRED)
  find_package (FARGPARSE QUIET)
  find_package (PFLOGGER QUIET)
  find_package (MAPL REQUIRED)
  include(mapl_acg)

because it will also work if mapl was compiled without fargparse or pflogger. If GOCART ends up use those libraries in the future, then QUIET would need to become REQUIRED.

climbfuji commented 9 months ago

@junwang-noaa I have a ufs-weather-model branch ready for you with changes in the ufs-weather-model repo itself, as well as in the GOCART submodule (submodule pointer and .gitmodules updated as usual).

git clone -b feature/esmf_850_mapl_2403 --recurse-submodules https://github.com/climbfuji/ufs-weather-model

The branch for GOCART is in my fork (https://github.com/climbfuji/GOCART - bugfix/mapl_cmake). @mathomp4 FYI

I didn't create any PRs yet, and the only test I ran was compiling the S2SWA application as per rt.conf on Hera with Intel:

> ./compile.sh hera "-DAPP=S2SWA -DCCPP_SUITES=FV3_GFS_v17_coupled_p8" "" intel YES NO 2>&1 | tee log.compile.hera.intel
...
Elapsed time 723 seconds. Compiling -DAPP=S2SWA -DCCPP_SUITES=FV3_GFS_v17_coupled_p8 -DMPI=ON -DCMAKE_BUILD_TYPE=Release -DMOM6SOLO=ON finished

mathomp4 commented 9 months ago

@climbfuji I was just quick copy-pasting. QUIET is probably smarter.

I suppose my hope is https://github.com/GEOS-ESM/MAPL/pull/2320 would make it unneeded, though I guess belt-and-suspenders in GOCART is good (since MAPL versions might not match up).

junwang-noaa commented 9 months ago

@climbfuji @mathomp4 Thanks for looking into the issue and providing a solution. I will run a full RT on hera.

climbfuji commented 9 months ago

Note that scotch is also updated to 7.0.4 (from 7.0.3), which is a bug fix release only, especially it includes the MPI bug fix that Alex Richert tracked down so meticulously over many weeks.

junwang-noaa commented 9 months ago

@climbfuji All the coupled tests with aerosol failed even though the compile jobs ran fine. Is there any configuration variable change required?

/scratch1/NCEPDEV/nems/Jun.Wang/nems/vlab/20230621/esmf850/dom/ufs-weather-model/tests/RegressionTests_hera.log /scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_80583/cpld_control_p8_intel

171: *** Error in `/scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_80583/cpld_control_p8_intel/./fv3.exe': double free or corruption (fasttop): 0x00000000212a64c0 ***
172: *** Error in `/scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_80583/cpld_control_p8_intel/./fv3.exe': double free or corruption (fasttop): 0x00000000227694c0 ***
173: *** Error in `/scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_80583/cpld_control_p8_intel/./fv3.exe': double free or corruption (fasttop): 0x0000000021afb4c0 ***
174: *** Error in `/scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_80583/cpld_control_p8_intel/./fv3.exe': double free or corruption (fasttop): 0x00000000211b04c0 ***

climbfuji commented 9 months ago

This looks like a bug introduced by the new libraries (MAPL if only aerosol tests fail?). I am not aware of having to set any additional variables. But it would be good to test rerunning those tests without OpenMP (in case they use OpenMP)?

@mathomp4 FYI

junwang-noaa commented 9 months ago

The cpld_control_p8_intel uses single thread, so it might not be an OpenMP issue

climbfuji commented 9 months ago

Hmm. Probably a good idea to rebuild the ufs in debug mode and see what happens there. If that doesn't reveal anything, I need to build esmf and mapl in debug mode in spack-stack.

mathomp4 commented 9 months ago

This looks like a bug introduced by the new libraries (MAPL if only aerosol tests fail?). I am not aware of having to set any additional variables. But it would be good to test rerunning those tests without OpenMP (in case they use OpenMP)?

@mathomp4 FYI

Huh. We definitely haven't seen any issues with MAPL on our end. But I also know you all use some bits of MAPL we don't. Like the multi-threaded bits. I'll ping @aoloso

climbfuji commented 9 months ago

@junwang-noaa I added MAPL-ESMF debug versions for Intel and GNU. You can use those with the following diff:

diff --git a/modulefiles/ufs_common.lua b/modulefiles/ufs_common.lua
index e09160a2..c0a753d8 100644
--- a/modulefiles/ufs_common.lua
+++ b/modulefiles/ufs_common.lua
@@ -10,7 +10,7 @@ local ufs_modules = {
   {["netcdf-c"]        = "4.9.2"},
   {["netcdf-fortran"]  = "4.6.0"},
   {["parallelio"]      = "2.5.10"},
-  {["esmf"]            = "8.5.0"},
+  {["esmf"]            = "8.5.0-debug"},
   {["fms"]             = "2023.01"},
   {["bacio"]           = "2.4.1"},
   {["crtm"]            = "2.4.0"},
@@ -20,7 +20,7 @@ local ufs_modules = {
   {["sp"]              = "2.3.3"},
   {["w3emc"]           = "2.9.2"},
   {["gftl-shared"]     = "1.5.0"},
-  {["mapl"]            = "2.40.3-esmf-8.5.0"},
+  {["mapl"]            = "2.40.3-debug-esmf-8.5.0-debug"},
   {["scotch"]          = "7.0.4"},
 }

Also, I assume you tested with one compiler (Intel?) Have you tried GNU?

junwang-noaa commented 9 months ago

@climbfuji @mathomp4 There might be something wrong with hera yesterday. I ran a coupled test with gocart (cpld_control_gfsv17) using the debug libraries today, and it passed. Then I tried the previous libraries without debug and the test also passed. I will run full RT again.

climbfuji commented 9 months ago

That's good news, please let us know how it goes!

climbfuji commented 9 months ago

@junwang-noaa How did the testing go? Do you think the ufs-w-m can move to ESMF 8.5.0 and MAPL 2.40.3 when updating to spack-stack-1.5.0?

junwang-noaa commented 9 months ago

@climbfuji Unfortunately, I got all the coupled tests failed again with the same error message, and there are lots of large size core files, which makes me the #1 disk space user, so I removed them. I was told there was some node issue recently and it will be fixed by today's maintenance, I'd like to try rerun the test when hera is back.

climbfuji commented 9 months ago

Ok, thanks @junwang-noaa !

junwang-noaa commented 9 months ago

@climbfuji I still got same error with all the gocart tests:

178: *** Error in `/scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_10014/cpld_control_p8_intel/./fv3.exe': double free or corruption (fasttop): 0x00000000229d34c0 ***
181: *** Error in `/scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_10014/cpld_control_p8_intel/./fv3.exe': double free or corruption (fasttop): 0x00000000227fc4c0 ***
183: *** Error in `/scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_10014/cpld_control_p8_intel/./fv3.exe': double free or corruption (fasttop): 0x000000002294c4c0 ***
193: *** Error in `/scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_10014/cpld_control_p8_intel/./fv3.exe': double free or corruption (fasttop): 0x000000002280d4c0 ***
...
193: ======= Backtrace: =========
193: /lib64/libc.so.6(+0x81329)[0x2af0e4f63329]
193: /lib64/libc.so.6(__cxa_finalize+0x9a)[0x2af0e4f1c05a]
193: /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/intel/2021.5.0/mapl-2.40.3-cdpwphm/lib64/libMAPL.ExtData2G.so(+0x8e5773)[0x2af0dd8df773]
193: ======= Memory map: ========
193: 00400000-06407000 r-xp 00000000 127:8fee 144122071499186324              /scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_10014/cpld_control_p8_intel/fv3.exe
193: 06607000-06823000 r--p 06007000 127:8fee 144122071499186324              /scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_10014/cpld_control_p8_intel/fv3.exe
193: 06823000-07d2b000 rw-p 06223000 127:8fee 144122071499186324              /scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_10014/cpld_control_p8_intel/fv3.exe
193: 07d2b000-210ba000 rw-p 00000000 00:00 0
193: 227f8000-2495a000 rw-p 00000000 00:00 0                                  [heap]
193: 2af0dcdd6000-2af0dcdf8000 r-xp 00000000 00:25 1248566784                 /usr/lib64/ld-2.17.so
193: 2af0dcdf8000-2af0dcdfd000 rw-p 00000000 00:00 0
193: 2af0dce0c000-2af0dce0d000 rw-s 00000000 00:33 818005                     /dev/shm/Intel_MPI_hhHu93 (deleted)
193: 2af0dce0d000-2af0dce0e000 r--s 0fb00000 00:05 25621                      /dev/infiniband/uverbs0
193: 2af0dce0e000-2af0dce0f000 r--s 0ff01000 00:05 25621                      /dev/infiniband/uverbs0

Would you please build esmf 850 with MAPL 2.35.2? That is the MAPL version I tested before, all the coupled tests ran successfully.

The tests without GOCART ran successfully.

rt_015_cpld_control_noaero_p8_intel.log:Test 015 cpld_control_noaero_p8_intel PASS
rt_016_cpld_control_nowave_noaero_p8_intel.log:Test 016 cpld_control_nowave_noaero_p8_intel PASS
rt_018_cpld_debug_noaero_p8_intel.log:Test 018 cpld_debug_noaero_p8_intel PASS
rt_019_cpld_control_noaero_p8_agrid_intel.log:Test 019 cpld_control_noaero_p8_agrid_intel PASS
rt_020_cpld_control_c48_intel.log:Test 020 cpld_control_c48_intel PASS
rt_022_cpld_control_pdlib_p8_intel.log:Test 022 cpld_control_pdlib_p8_intel PASS
rt_025_cpld_debug_pdlib_p8_intel.log:Test 025 cpld_debug_pdlib_p8_intel PASS

junwang-noaa commented 9 months ago

I want to add that it looks to me all the jobs finished, I saw the model history files and restart files. E.g. in /scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_10014/cpld_control_p8_intel/out

  0:
  0:      ENDING DATE-TIME    SEP 07,2023  01:36:22.201  250  THU   2460195
  0:      PROGRAM ufs       HAS ENDED.
  0: * . * . * . * . * . * . * . * . * . * . * . * . * . * . * . * . * . * . * . * .
  0: *****************RESOURCE STATISTICS*******************************
  0: The total amount of wall time                        = 816.433611
  0: The total amount of time in user mode                = 580.388703
  0: The total amount of time in sys mode                 = 10.407293
  0: The maximum resident set size (KB)                   = 3211592
  0: Number of page faults without I/O activity           = 1242508
  0: Number of page faults with I/O activity              = 2
  0: Number of times filesystem performed INPUT           = 416632
  0: Number of times filesystem performed OUTPUT          = 3251016
  0: Number of Voluntary Context Switches                 = 27267
  0: Number of InVoluntary Context Switches               = 976
  0: *****************END OF RESOURCE STATISTICS*************************
  0:
_______________________________________________________________
Start Epilog on node h3c54 for job 49166518 :: Thu Sep  7 01:38:23 UTC 2023
Job 49166518 (not serial) finished for user Jun.Wang in partition hera with exit code 137:0

All the ESMF profile looks OK. It's confusion

By the way, the error message shows up in the gnu test as well (see /scratch1/NCEPDEV/stmp2/Jun.Wang/FV3_RT/rt_69941/cpld_control_p8_gnu/err).

climbfuji commented 9 months ago

@junwang-noaa I am going to (try to) install mapl@2.35.2 with esmf@8.5.0, but they way @mathomp4 configured those packages in spack is that versions of mapl older than 2.40 require esmf 8.4.2. I'll change that manually and see what happens.

mathomp4 commented 9 months ago

I coded MAPL (or rather the spack package) that way because ESMF v8.5 is non-zero-diff to ESMF v8.4. And MAPL, as used in GEOS, used ESMF 8.4 from 2.34 to 2.39, I think.

Now, I'm pretty sure MAPL 2.35.2 can work just fine with ESMF 8.5, but you would end up with different answers. Not "different climate" different, but rather ESMF changed the precision of cubed-sphere grid generation to better match how MAPL does it and that is a change in bit-for-bit results.

Of course, MAPL 2.40 requires 8.5.0 because we use a new ESMF feature and things just won't compile.

climbfuji commented 9 months ago

@junwang-noaa I updated the test stack and my ufs-weather-model branch, please check out a fresh copy (one more bug fix in GOCART needed), ignore the mapl_2403 in the name:

git clone -b feature/esmf_850_mapl_2403 --recursive https://github.com/climbfuji/ufs-weather-model

I tested compiling on Hera, but I didn't run any regression tests:

./compile.sh hera "-DAPP=S2SWA -DCCPP_SUITES=FV3_GFS_v17_coupled_p8" "" intel YES NO 2>&1 | tee log.compile.hera.intel

mathomp4 commented 9 months ago

@junwang-noaa Was that a debug build of MAPL? It would be interesting to try and get a better traceback of where in ExtData it's failing. Then we could have @bena-nasa maybe take a look.

That said, we use ExtData2G pretty extensively. If there was a double-free issue you'd think we'd hit it all the time as we open and close files...

junwang-noaa commented 9 months ago

@climbfuji I got the same error with the ESMF8.5.0 with MAPL 2.35.2 (/scratch1/NCEPDEV/nems/Jun.Wang/nems/vlab/20230621/esmf850/dom/mapl/ufs-weather-model/tests) . While all the coupled tests was working when I used hpc stack a couple weeks ago (/scratch1/NCEPDEV/nems/Jun.Wang/nems/vlab/20230621/esmf850/repo_20230816/ufs-weather-model)

@mathomp4 No, that is not a debug build. I was trying to rerun the coupled test with the ESMF 8.5.0/MAPL2.40.3 debug build (/scratch1/NCEPDEV/nems/Jun.Wang/nems/vlab/20230621/esmf850/dom/ufs-weather-model), but I got compile error:

Lmod has detected the following error: The following module(s) are unknown:
"mapl/2.40.3-debug-esmf-8.5.0-debug" "esmf/8.5.0-debug"

@climbfuji would you please rebuild the debug test?

climbfuji commented 9 months ago

@junwang-noaa I decided to run rt.sh myself on Hera with mapl@2.35.2, and I got test failures, too:

bash-4.2$ cat fail_test
cpld_control_p8_mixedmode_intel 001 failed in run_test
cpld_control_gfsv17_intel 002 failed in run_test
cpld_control_p8_intel 003 failed in run_test
cpld_control_ciceC_p8_intel 004 failed in run_test
cpld_control_c192_p8_intel 005 failed in run_test
cpld_bmark_p8_intel 006 failed in run_test
cpld_debug_p8_intel 009 failed in run_test
cpld_control_p8_faster_intel 013 failed in run_test
atmaero_control_p8_intel 123 failed in run_test
atmaero_control_p8_rad_intel 124 failed in run_test
atmaero_control_p8_rad_micro_intel 125 failed in run_test
cpld_control_p8_gnu 164 failed in run_test
cpld_debug_p8_gnu 166 failed in run_test

They look the same as the previous test failures (model finishes successfully, but when cleaning up the memory there is this double-free corruption.

Yes, I can rebuild the two modules in debug mode, but after that I really need to hand this over to the EMC spack-stack folks who are normally the ones to support building on Hera.

climbfuji commented 9 months ago

@junwang-noaa This is interesting. I built debug versions of esmf 850 and mapl2352:

$ git diff modulefiles/
diff --git a/modulefiles/ufs_common.lua b/modulefiles/ufs_common.lua
index a24a831f..e418bbb4 100644
--- a/modulefiles/ufs_common.lua
+++ b/modulefiles/ufs_common.lua
@@ -10,7 +10,7 @@ local ufs_modules = {
   {["netcdf-c"]        = "4.9.2"},
   {["netcdf-fortran"]  = "4.6.0"},
   {["parallelio"]      = "2.5.10"},
-  {["esmf"]            = "8.5.0"},
+  {["esmf"]            = "8.5.0-debug"},
   {["fms"]             = "2023.01"},
   {["bacio"]           = "2.4.1"},
   {["crtm"]            = "2.4.0"},
@@ -20,7 +20,7 @@ local ufs_modules = {
   {["sp"]              = "2.3.3"},
   {["w3emc"]           = "2.9.2"},
   {["gftl-shared"]     = "1.5.0"},
-  {["mapl"]            = "2.35.2-esmf-8.5.0"},
+  {["mapl"]            = "2.35.2-debug-esmf-8.5.0-debug"},
   {["scotch"]          = "7.0.4"},
 }

Then I ran

> ./rt.sh -n cpld_debug_p8 intel -a nems 2>&1 | tee log.rt_cpld_debug_p8
...
REGRESSION TEST WAS SUCCESSFUL

junwang-noaa commented 9 months ago

That is what I got when running with esmf 850 with mapl 2.40.3, the debug test passed, so I thought it might be machine issue when the previous test failed. But after I used your non-debug build, the coupled tests failed again. Puzzled.

climbfuji commented 9 months ago

I'll try gnu debug next, then run the non-debug tests with the spack debug modules.

climbfuji commented 9 months ago

GNU debug failed with the debug esmf and mapl modules! And it left a hopefully useful stacktrace:

/scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/out
/scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/err

climbfuji commented 9 months ago

Here is the backtrace for one specific task, 33:

 33: *** Error in `/scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/./fv3.exe': double free or corruption (fasttop): 0x0000000026b2a540 ***
 33: ======= Backtrace: =========
 33: /lib64/libc.so.6(+0x81329)[0x2ab33d402329]
 33: /scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/./fv3.exe(_ZN9__gnu_cxx13new_allocatorIP15ompi_datatype_tE10deallocateEPS2_m+0x20)[0x133288a]
 33: /scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/./fv3.exe(_ZNSt16allocator_traitsISaIP15ompi_datatype_tEE10deallocateERS2_PS1_m+0x2b)[0x1330262]
 33: /scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/./fv3.exe(_ZNSt12_Vector_baseIP15ompi_datatype_tSaIS1_EE13_M_deallocateEPS1_m+0x32)[0x132cbda]
 33: /scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/./fv3.exe(_ZNSt12_Vector_baseIP15ompi_datatype_tSaIS1_EED1Ev+0x3e)[0x1329a3c]
 33: /scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/./fv3.exe(_ZNSt6vectorIP15ompi_datatype_tSaIS1_EED2Ev+0x41)[0x1336671]
 33: /lib64/libc.so.6(__cxa_finalize+0x9a)[0x2ab33d3bb05a]
 33: /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/mapl-2.35.2-cbwsk3a/lib64/libMAPL.ExtData2G.so(+0xa13583)[0x2ab3371ef583]
 33: ======= Memory map: ========
 33: 00400000-0b2e2000 r-xp 00000000 127:8fee 144122099114509914              /scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/fv3.exe
 33: 0b4e2000-0b511000 r--p 0aee2000 127:8fee 144122099114509914              /scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/fv3.exe
 33: 0b511000-0bbd0000 rw-p 0af11000 127:8fee 144122099114509914              /scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/fv3.exe
 33: 0bbd0000-24c3d000 rw-p 00000000 00:00 0
 33: 26b13000-37d14000 rw-p 00000000 00:00 0                                  [heap]
 33: 37d14000-4f78b000 rw-p 00000000 00:00 0                                  [heap]
 33: 2ab3365b8000-2ab3365da000 r-xp 00000000 00:25 1248566784                 /usr/lib64/ld-2.17.so
 33: 2ab3365da000-2ab3365df000 rw-p 00000000 00:00 0
 33: 2ab3365fb000-2ab3365fd000 rw-p 00000000 00:00 0
 33: 2ab3365fd000-2ab3366a0000 r--p 00000000 127:8fee 144120918367656014      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libstdc++.so.6.0.28
 33: 2ab3366a0000-2ab33671f000 r-xp 000a3000 127:8fee 144120918367656014      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libstdc++.so.6.0.28
 33: 2ab33671f000-2ab336760000 r--p 00122000 127:8fee 144120918367656014      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libstdc++.so.6.0.28
 33: 2ab336760000-2ab33676b000 r--p 00162000 127:8fee 144120918367656014      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libstdc++.so.6.0.28
 33: 2ab33676b000-2ab33676f000 rw-p 0016d000 127:8fee 144120918367656014      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libstdc++.so.6.0.28
 33: 2ab33676f000-2ab336774000 rw-p 00000000 00:00 0
 33: 2ab336774000-2ab33677e000 r--p 00000000 127:8fee 144120918367655787      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libgomp.so.1.0.0
 33: 2ab33677e000-2ab336795000 r-xp 0000a000 127:8fee 144120918367655787      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libgomp.so.1.0.0
 33: 2ab336795000-2ab33679e000 r--p 00021000 127:8fee 144120918367655787      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libgomp.so.1.0.0
 33: 2ab33679e000-2ab33679f000 ---p 0002a000 127:8fee 144120918367655787      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libgomp.so.1.0.0
 33: 2ab33679f000-2ab3367a0000 r--p 0002a000 127:8fee 144120918367655787      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libgomp.so.1.0.0
 33: 2ab3367a0000-2ab3367a1000 rw-p 0002b000 127:8fee 144120918367655787      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libgomp.so.1.0.0
 33: 2ab3367a1000-2ab3367a4000 rw-p 00000000 00:00 0
 33: 2ab3367a4000-2ab3367a7000 r--p 00000000 127:8fee 144120918367656558      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libgcc_s.so.1
 33: 2ab3367a7000-2ab3367b3000 r-xp 00003000 127:8fee 144120918367656558      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libgcc_s.so.1
 33: 2ab3367b3000-2ab3367b6000 r--p 0000f000 127:8fee 144120918367656558      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libgcc_s.so.1
 33: 2ab3367b6000-2ab3367b7000 r--p 00011000 127:8fee 144120918367656558      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libgcc_s.so.1
 33: 2ab3367b7000-2ab3367b8000 rw-p 00012000 127:8fee 144120918367656558      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libgcc_s.so.1
 33: 2ab3367b8000-2ab3367d9000 rw-p 00000000 00:00 0
 33: 2ab3367d9000-2ab3367da000 r--p 00021000 00:25 1248566784                 /usr/lib64/ld-2.17.so
 33: 2ab3367da000-2ab3367db000 rw-p 00022000 00:25 1248566784                 /usr/lib64/ld-2.17.so
 33: 2ab3367db000-2ab3367dc000 rw-p 00000000 00:00 0
 33: 2ab3367dc000-2ab33a1a9000 r-xp 00000000 127:8fee 144122098913178522      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/mapl-2.35.2-cbwsk3a/lib64/libMAPL.ExtData2G.so
 33: 2ab33a1a9000-2ab33a3a9000 ---p 039cd000 127:8fee 144122098913178522      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/mapl-2.35.2-cbwsk3a/lib64/libMAPL.ExtData2G.so
 33: 2ab33a3a9000-2ab33a3dd000 r--p 039cd000 127:8fee 144122098913178522      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/mapl-2.35.2-cbwsk3a/lib64/libMAPL.ExtData2G.so
 33: 2ab33a3dd000-2ab33a5d5000 rw-p 03a01000 127:8fee 144122098913178522      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/mapl-2.35.2-cbwsk3a/lib64/libMAPL.ExtData2G.so
 33: 2ab33a5d5000-2ab33a729000 rw-p 00000000 00:00 0
 33: 2ab33a729000-2ab33a72b000 r-xp 00000000 00:25 1248567162                 /usr/lib64/libdl-2.17.so
 33: 2ab33a72b000-2ab33a92b000 ---p 00002000 00:25 1248567162                 /usr/lib64/libdl-2.17.so
 33: 2ab33a92b000-2ab33a92c000 r--p 00002000 00:25 1248567162                 /usr/lib64/libdl-2.17.so
 33: 2ab33a92c000-2ab33a92d000 rw-p 00003000 00:25 1248567162                 /usr/lib64/libdl-2.17.so
 33: 2ab33a92d000-2ab33a96a000 r-xp 00000000 127:8fee 144122099013908524      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libpng-1.6.37-wucb5ai/lib64/libpng16.so.16.37.0
 33: 2ab33a96a000-2ab33ab69000 ---p 0003d000 127:8fee 144122099013908524      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libpng-1.6.37-wucb5ai/lib64/libpng16.so.16.37.0
 33: 2ab33ab69000-2ab33ab6a000 r--p 0003c000 127:8fee 144122099013908524      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libpng-1.6.37-wucb5ai/lib64/libpng16.so.16.37.0
 33: 2ab33ab6a000-2ab33ab6b000 rw-p 0003d000 127:8fee 144122099013908524      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libpng-1.6.37-wucb5ai/lib64/libpng16.so.16.37.0
 33: 2ab33ab6b000-2ab33ab81000 r-xp 00000000 127:8fee 144122098678317164      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/zlib-1.2.13-5dmiymb/lib/libz.so.1.2.13
 33: 2ab33ab81000-2ab33ad81000 ---p 00016000 127:8fee 144122098678317164      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/zlib-1.2.13-5dmiymb/lib/libz.so.1.2.13
 33: 2ab33ad81000-2ab33ad82000 r--p 00016000 127:8fee 144122098678317164      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/zlib-1.2.13-5dmiymb/lib/libz.so.1.2.13
 33: 2ab33ad82000-2ab33ad83000 rw-p 00017000 127:8fee 144122098678317164      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/zlib-1.2.13-5dmiymb/lib/libz.so.1.2.13
 33: 2ab33ad83000-2ab33adde000 r-xp 00000000 127:8fee 144122099030589033      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/jasper-2.0.32-anzs2t3/lib64/libjasper.so.4.0.0
 33: 2ab33adde000-2ab33afde000 ---p 0005b000 127:8fee 144122099030589033      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/jasper-2.0.32-anzs2t3/lib64/libjasper.so.4.0.0
 33: 2ab33afde000-2ab33afe0000 r--p 0005b000 127:8fee 144122099030589033      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/jasper-2.0.32-anzs2t3/lib64/libjasper.so.4.0.0
 33: 2ab33afe0000-2ab33afe1000 rw-p 0005d000 127:8fee 144122099030589033      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/jasper-2.0.32-anzs2t3/lib64/libjasper.so.4.0.0
 33: 2ab33afe1000-2ab33afe4000 rw-p 00000000 00:00 0
 33: 2ab33afe4000-2ab33b080000 r-xp 00000000 127:8fee 144122099013907297      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libjpeg-turbo-2.1.0-72yxdvw/lib64/libjpeg.so.62.3.0
 33: 2ab33b080000-2ab33b27f000 ---p 0009c000 127:8fee 144122099013907297      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libjpeg-turbo-2.1.0-72yxdvw/lib64/libjpeg.so.62.3.0
 33: 2ab33b27f000-2ab33b280000 r--p 0009b000 127:8fee 144122099013907297      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libjpeg-turbo-2.1.0-72yxdvw/lib64/libjpeg.so.62.3.0
 33: 2ab33b280000-2ab33b281000 rw-p 0009c000 127:8fee 144122099013907297      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libjpeg-turbo-2.1.0-72yxdvw/lib64/libjpeg.so.62.3.0
 33: 2ab33b281000-2ab33b288000 r-xp 00000000 00:25 1248587370                 /usr/lib64/librt-2.17.so
 33: 2ab33b288000-2ab33b487000 ---p 00007000 00:25 1248587370                 /usr/lib64/librt-2.17.so
 33: 2ab33b487000-2ab33b488000 r--p 00006000 00:25 1248587370                 /usr/lib64/librt-2.17.so
 33: 2ab33b488000-2ab33b489000 rw-p 00007000 00:25 1248587370                 /usr/lib64/librt-2.17.so
 33: 2ab33b489000-2ab33b5eb000 r-xp 00000000 127:8fee 144122098913156476      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/netcdf-c-4.9.2-x4nhxtg/lib/libnetcdf.so.19.2.2
 33: 2ab33b5eb000-2ab33b7ea000 ---p 00162000 127:8fee 144122098913156476      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/netcdf-c-4.9.2-x4nhxtg/lib/libnetcdf.so.19.2.2
 33: 2ab33b7ea000-2ab33b7ed000 r--p 00161000 127:8fee 144122098913156476      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/netcdf-c-4.9.2-x4nhxtg/lib/libnetcdf.so.19.2.2
 33: 2ab33b7ed000-2ab33b7f9000 rw-p 00164000 127:8fee 144122098913156476      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/netcdf-c-4.9.2-x4nhxtg/lib/libnetcdf.so.19.2.2
 33: 2ab33b7f9000-2ab33b88e000 rw-p 00000000 00:00 0
 33: 2ab33b88e000-2ab33b907000 r-xp 00000000 127:8fee 144122098913157696      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/netcdf-fortran-4.6.0-zjgkscn/lib/libnetcdff.so.7.1.0
 33: 2ab33b907000-2ab33bb06000 ---p 00079000 127:8fee 144122098913157696      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/netcdf-fortran-4.6.0-zjgkscn/lib/libnetcdff.so.7.1.0
 33: 2ab33bb06000-2ab33bb07000 r--p 00078000 127:8fee 144122098913157696      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/netcdf-fortran-4.6.0-zjgkscn/lib/libnetcdff.so.7.1.0
 33: 2ab33bb07000-2ab33bb09000 rw-p 00079000 127:8fee 144122098913157696      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/netcdf-fortran-4.6.0-zjgkscn/lib/libnetcdff.so.7.1.0
 33: 2ab33bb09000-2ab33bd95000 r-xp 00000000 00:2b 1905436455                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libgfortran.so.5.0.0
 33: 2ab33bd95000-2ab33bf95000 ---p 0028c000 00:2b 1905436455                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libgfortran.so.5.0.0
 33: 2ab33bf95000-2ab33bf96000 r--p 0028c000 00:2b 1905436455                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libgfortran.so.5.0.0
 33: 2ab33bf96000-2ab33bf98000 rw-p 0028d000 00:2b 1905436455                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libgfortran.so.5.0.0
 33: 2ab33bf98000-2ab33c099000 r-xp 00000000 00:25 1248567483                 /usr/lib64/libm-2.17.so
 33: 2ab33c099000-2ab33c298000 ---p 00101000 00:25 1248567483                 /usr/lib64/libm-2.17.so
 33: 2ab33c298000-2ab33c299000 r--p 00100000 00:25 1248567483                 /usr/lib64/libm-2.17.so
 33: 2ab33c299000-2ab33c29a000 rw-p 00101000 00:25 1248567483                 /usr/lib64/libm-2.17.so
 33: 2ab33c29a000-2ab33c2da000 r-xp 00000000 127:8fee 144122098913159818      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/parallelio-2.5.10-vmx7wox/lib/libpioc.so
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 33: 2ab33c4da000-2ab33c4db000 r--p 00040000 127:8fee 144122098913159818      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/parallelio-2.5.10-vmx7wox/lib/libpioc.so
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 33: 2ab33fe07000-2ab33fe36000 r-xp 00000000 127:8fee 144122098678320623      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/lz4-1.9.4-m37m6fq/lib/liblz4.so.1.9.4
 33: 2ab33fe36000-2ab340035000 ---p 0002f000 127:8fee 144122098678320623      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/lz4-1.9.4-m37m6fq/lib/liblz4.so.1.9.4
 33: 2ab340035000-2ab340036000 r--p 0002e000 127:8fee 144122098678320623      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/lz4-1.9.4-m37m6fq/lib/liblz4.so.1.9.4
 33: 2ab340036000-2ab340037000 rw-p 0002f000 127:8fee 144122098678320623      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/lz4-1.9.4-m37m6fq/lib/liblz4.so.1.9.4
 33: 2ab340037000-2ab34003b000 r--p 00000000 127:8fee 144120918367656048      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/liblzma.so.5.2.5
 33: 2ab34003b000-2ab340052000 r-xp 00004000 127:8fee 144120918367656048      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/liblzma.so.5.2.5
 33: 2ab340052000-2ab34005d000 r--p 0001b000 127:8fee 144120918367656048      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/liblzma.so.5.2.5
 33: 2ab34005d000-2ab34005e000 ---p 00026000 127:8fee 144120918367656048      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/liblzma.so.5.2.5
 33: 2ab34005e000-2ab34005f000 r--p 00026000 127:8fee 144120918367656048      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/liblzma.so.5.2.5
 33: 2ab34005f000-2ab340060000 rw-p 00027000 127:8fee 144120918367656048      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/liblzma.so.5.2.5
 33: 2ab340060000-2ab340169000 r-xp 00000000 127:8fee 144122098678320167      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libiconv-1.17-riit3mo/lib/libiconv.so.2.6.1
 33: 2ab340169000-2ab340368000 ---p 00109000 127:8fee 144122098678320167      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libiconv-1.17-riit3mo/lib/libiconv.so.2.6.1
 33: 2ab340368000-2ab34036b000 r--p 00108000 127:8fee 144122098678320167      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libiconv-1.17-riit3mo/lib/libiconv.so.2.6.1
 33: 2ab34036b000-2ab34036c000 rw-p 0010b000 127:8fee 144122098678320167      /scratch1/NCEPDEV/da/Dom.Heinzeller/spack-stack-esmf850/envs/unified-env/install/gcc/9.2.0/libiconv-1.17-riit3mo/lib/libiconv.so.2.6.1
 33: 2ab34036c000-2ab34039e000 r-xp 00000000 00:25 1248567422                 /usr/lib64/libidn.so.11.6.11
 33: 2ab34039e000-2ab34059d000 ---p 00032000 00:25 1248567422                 /usr/lib64/libidn.so.11.6.11
 33: 2ab34059d000-2ab34059e000 r--p 00031000 00:25 1248567422                 /usr/lib64/libidn.so.11.6.11
 33: 2ab34059e000-2ab34059f000 rw-p 00032000 00:25 1248567422                 /usr/lib64/libidn.so.11.6.11
 33: 2ab34059f000-2ab3405ca000 r-xp 00000000 00:25 1248587418                 /usr/lib64/libssh2.so.1.0.1
 33: 2ab3405ca000-2ab3407ca000 ---p 0002b000 00:25 1248587418                 /usr/lib64/libssh2.so.1.0.1
 33: 2ab3407ca000-2ab3407cb000 r--p 0002b000 00:25 1248587418                 /usr/lib64/libssh2.so.1.0.1
 33: 2ab3407cb000-2ab3407cc000 rw-p 0002c000 00:25 1248587418                 /usr/lib64/libssh2.so.1.0.1
 33: 2ab3407cc000-2ab34082b000 r-xp 00000000 00:25 1248587421                 /usr/lib64/libssl3.so
 33: 2ab34082b000-2ab340a2b000 ---p 0005f000 00:25 1248587421                 /usr/lib64/libssl3.so
 33: 2ab340a2b000-2ab340a2f000 r--p 0005f000 00:25 1248587421                 /usr/lib64/libssl3.so
 33: 2ab340a2f000-2ab340a30000 rw-p 00063000 00:25 1248587421                 /usr/lib64/libssl3.so
 33: 2ab340a30000-2ab340a31000 rw-p 00000000 00:00 0
 33: 2ab340a31000-2ab340a56000 r-xp 00000000 00:25 1248587401                 /usr/lib64/libsmime3.so
 33: 2ab340a56000-2ab340c55000 ---p 00025000 00:25 1248587401                 /usr/lib64/libsmime3.so
 33: 2ab340c55000-2ab340c58000 r--p 00024000 00:25 1248587401                 /usr/lib64/libsmime3.so
 33: 2ab340c58000-2ab340c59000 rw-p 00027000 00:25 1248587401                 /usr/lib64/libsmime3.so
 33: 2ab340c59000-2ab340d8a000 r-xp 00000000 00:25 1248567550                 /usr/lib64/libnss3.so
 33: 2ab340d8a000-2ab340f8a000 ---p 00131000 00:25 1248567550                 /usr/lib64/libnss3.so
 33: 2ab340f8a000-2ab340f8f000 r--p 00131000 00:25 1248567550                 /usr/lib64/libnss3.so
 33: 2ab340f8f000-2ab340f92000 rw-p 00136000 00:25 1248567550                 /usr/lib64/libnss3.so
 33: 2ab340f92000-2ab340f93000 rw-p 00000000 00:00 0
 33: 2ab340f93000-2ab340fbc000 r-xp 00000000 00:25 1248567567                 /usr/lib64/libnssutil3.so
 33: 2ab340fbc000-2ab3411bb000 ---p 00029000 00:25 1248567567                 /usr/lib64/libnssutil3.so
 33: 2ab3411bb000-2ab3411c2000 r--p 00028000 00:25 1248567567                 /usr/lib64/libnssutil3.so
 33: 2ab3411c2000-2ab3411c3000 rw-p 0002f000 00:25 1248567567                 /usr/lib64/libnssutil3.so
 33: 2ab3411c3000-2ab3411c6000 r-xp 00000000 00:25 1248587311                 /usr/lib64/libplds4.so
 33: 2ab3411c6000-2ab3413c5000 ---p 00003000 00:25 1248587311                 /usr/lib64/libplds4.so
 33: 2ab3413c5000-2ab3413c6000 r--p 00002000 00:25 1248587311                 /usr/lib64/libplds4.so
 33: 2ab3413c6000-2ab3413c7000 rw-p 00003000 00:25 1248587311                 /usr/lib64/libplds4.so
 33: 2ab3413c7000-2ab3413cb000 r-xp 00000000 00:25 1248587310                 /usr/lib64/libplc4.so
 33: 2ab3413cb000-2ab3415ca000 ---p 00004000 00:25 1248587310                 /usr/lib64/libplc4.so
 33: 2ab3415ca000-2ab3415cb000 r--p 00003000 00:25 1248587310                 /usr/lib64/libplc4.so
 33: 2ab3415cb000-2ab3415cc000 rw-p 00004000 00:25 1248587310                 /usr/lib64/libplc4.so
 33: 2ab3415cc000-2ab341606000 r-xp 00000000 00:25 1248567549                 /usr/lib64/libnspr4.so
 33: 2ab341606000-2ab341806000 ---p 0003a000 00:25 1248567549                 /usr/lib64/libnspr4.so
 33: 2ab341806000-2ab341807000 r--p 0003a000 00:25 1248567549                 /usr/lib64/libnspr4.so
 33: 2ab341807000-2ab341809000 rw-p 0003b000 00:25 1248567549                 /usr/lib64/libnspr4.so
 33: 2ab341809000-2ab34180b000 rw-p 00000000 00:00 0
 33: 2ab34180b000-2ab341855000 r-xp 00000000 00:25 1248567312                 /usr/lib64/libgssapi_krb5.so.2.2
 33: 2ab341855000-2ab341a55000 ---p 0004a000 00:25 1248567312                 /usr/lib64/libgssapi_krb5.so.2.2
 33: 2ab341a55000-2ab341a56000 r--p 0004a000 00:25 1248567312                 /usr/lib64/libgssapi_krb5.so.2.2
 33: 2ab341a56000-2ab341a58000 rw-p 0004b000 00:25 1248567312                 /usr/lib64/libgssapi_krb5.so.2.2
 33: 2ab341a58000-2ab341b31000 r-xp 00000000 00:25 1248567461                 /usr/lib64/libkrb5.so.3.3
 33: 2ab341b31000-2ab341d30000 ---p 000d9000 00:25 1248567461                 /usr/lib64/libkrb5.so.3.3
 33: 2ab341d30000-2ab341d3e000 r--p 000d8000 00:25 1248567461                 /usr/lib64/libkrb5.so.3.3
 33: 2ab341d3e000-2ab341d41000 rw-p 000e6000 00:25 1248567461                 /usr/lib64/libkrb5.so.3.3
 33: 2ab341d41000-2ab341d72000 r-xp 00000000 00:25 1248567450                 /usr/lib64/libk5crypto.so.3.1
 33: 2ab341d72000-2ab341f71000 ---p 00031000 00:25 1248567450                 /usr/lib64/libk5crypto.so.3.1
 33: 2ab341f71000-2ab341f73000 r--p 00030000 00:25 1248567450                 /usr/lib64/libk5crypto.so.3.1
 33: 2ab341f73000-2ab341f74000 rw-p 00032000 00:25 1248567450                 /usr/lib64/libk5crypto.so.3.1
 33: 2ab341f74000-2ab341f77000 r-xp 00000000 00:25 1248567119                 /usr/lib64/libcom_err.so.2.1
 33: 2ab341f77000-2ab342176000 ---p 00003000 00:25 1248567119                 /usr/lib64/libcom_err.so.2.1
 33: 2ab342176000-2ab342177000 r--p 00002000 00:25 1248567119                 /usr/lib64/libcom_err.so.2.1
 33: 2ab342177000-2ab342178000 rw-p 00003000 00:25 1248567119                 /usr/lib64/libcom_err.so.2.1
 33: 2ab342178000-2ab342186000 r-xp 00000000 00:25 1248567465                 /usr/lib64/liblber-2.4.so.2.10.7
 33: 2ab342186000-2ab342385000 ---p 0000e000 00:25 1248567465                 /usr/lib64/liblber-2.4.so.2.10.7
 33: 2ab342385000-2ab342386000 r--p 0000d000 00:25 1248567465                 /usr/lib64/liblber-2.4.so.2.10.7
 33: 2ab342386000-2ab342387000 rw-p 0000e000 00:25 1248567465                 /usr/lib64/liblber-2.4.so.2.10.7
 33: 2ab342387000-2ab3423d9000 r-xp 00000000 00:25 1248567467                 /usr/lib64/libldap-2.4.so.2.10.7
 33: 2ab3423d9000-2ab3425d9000 ---p 00052000 00:25 1248567467                 /usr/lib64/libldap-2.4.so.2.10.7
 33: 2ab3425d9000-2ab3425db000 r--p 00052000 00:25 1248567467                 /usr/lib64/libldap-2.4.so.2.10.7
 33: 2ab3425db000-2ab3425dc000 rw-p 00054000 00:25 1248567467                 /usr/lib64/libldap-2.4.so.2.10.7
 33: 2ab3425dc000-2ab342643000 r-xp 00000000 00:25 1248587420                 /usr/lib64/libssl.so.1.0.2k
 33: 2ab342643000-2ab342843000 ---p 00067000 00:25 1248587420                 /usr/lib64/libssl.so.1.0.2k
 33: 2ab342843000-2ab342847000 r--p 00067000 00:25 1248587420                 /usr/lib64/libssl.so.1.0.2k
 33: 2ab342847000-2ab34284e000 rw-p 0006b000 00:25 1248587420                 /usr/lib64/libssl.so.1.0.2k
 33: 2ab34284e000-2ab342a85000 r-xp 00000000 00:25 1248567125                 /usr/lib64/libcrypto.so.1.0.2k
 33: 2ab342a85000-2ab342c84000 ---p 00237000 00:25 1248567125                 /usr/lib64/libcrypto.so.1.0.2k
 33: 2ab342c84000-2ab342ca0000 r--p 00236000 00:25 1248567125                 /usr/lib64/libcrypto.so.1.0.2k
 33: 2ab342ca0000-2ab342cad000 rw-p 00252000 00:25 1248567125                 /usr/lib64/libcrypto.so.1.0.2k
 33: 2ab342cad000-2ab342cb1000 rw-p 00000000 00:00 0
 33: 2ab342cb1000-2ab342cbf000 r-xp 00000000 00:25 1248567462                 /usr/lib64/libkrb5support.so.0.1
 33: 2ab342cbf000-2ab342ebf000 ---p 0000e000 00:25 1248567462                 /usr/lib64/libkrb5support.so.0.1
 33: 2ab342ebf000-2ab342ec0000 r--p 0000e000 00:25 1248567462                 /usr/lib64/libkrb5support.so.0.1
 33: 2ab342ec0000-2ab342ec1000 rw-p 0000f000 00:25 1248567462                 /usr/lib64/libkrb5support.so.0.1
 33: 2ab342ec1000-2ab342ec4000 r-xp 00000000 00:25 1248567454                 /usr/lib64/libkeyutils.so.1.5
 33: 2ab342ec4000-2ab3430c3000 ---p 00003000 00:25 1248567454                 /usr/lib64/libkeyutils.so.1.5
 33: 2ab3430c3000-2ab3430c4000 r--p 00002000 00:25 1248567454                 /usr/lib64/libkeyutils.so.1.5
 33: 2ab3430c4000-2ab3430c5000 rw-p 00003000 00:25 1248567454                 /usr/lib64/libkeyutils.so.1.5
 33: 2ab3430c5000-2ab3430db000 r-xp 00000000 00:25 1248587358                 /usr/lib64/libresolv-2.17.so
 33: 2ab3430db000-2ab3432db000 ---p 00016000 00:25 1248587358                 /usr/lib64/libresolv-2.17.so
 33: 2ab3432db000-2ab3432dc000 r--p 00016000 00:25 1248587358                 /usr/lib64/libresolv-2.17.so
 33: 2ab3432dc000-2ab3432dd000 rw-p 00017000 00:25 1248587358                 /usr/lib64/libresolv-2.17.so
 33: 2ab3432dd000-2ab3432df000 rw-p 00000000 00:00 0
 33: 2ab3432df000-2ab3432fb000 r-xp 00000000 00:25 1248587380                 /usr/lib64/libsasl2.so.3.0.0
 33: 2ab3432fb000-2ab3434fa000 ---p 0001c000 00:25 1248587380                 /usr/lib64/libsasl2.so.3.0.0
 33: 2ab3434fa000-2ab3434fb000 r--p 0001b000 00:25 1248587380                 /usr/lib64/libsasl2.so.3.0.0
 33: 2ab3434fb000-2ab3434fc000 rw-p 0001c000 00:25 1248587380                 /usr/lib64/libsasl2.so.3.0.0
 33: 2ab3434fc000-2ab343520000 r-xp 00000000 00:25 1248587387                 /usr/lib64/libselinux.so.1
 33: 2ab343520000-2ab34371f000 ---p 00024000 00:25 1248587387                 /usr/lib64/libselinux.so.1
 33: 2ab34371f000-2ab343720000 r--p 00023000 00:25 1248587387                 /usr/lib64/libselinux.so.1
 33: 2ab343720000-2ab343721000 rw-p 00024000 00:25 1248587387                 /usr/lib64/libselinux.so.1
 33: 2ab343721000-2ab343723000 rw-p 00000000 00:00 0
 33: 2ab343723000-2ab34372b000 r-xp 00000000 00:25 1248567123                 /usr/lib64/libcrypt-2.17.so
 33: 2ab34372b000-2ab34392a000 ---p 00008000 00:25 1248567123                 /usr/lib64/libcrypt-2.17.so
 33: 2ab34392a000-2ab34392b000 r--p 00007000 00:25 1248567123                 /usr/lib64/libcrypt-2.17.so
 33: 2ab34392b000-2ab34392c000 rw-p 00008000 00:25 1248567123                 /usr/lib64/libcrypt-2.17.so
 33: 2ab34392c000-2ab34395a000 rw-p 00000000 00:00 0
 33: 2ab34395a000-2ab34395c000 r--p 00000000 127:8fee 144120918401108337      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libpcre.so.1.2.13
 33: 2ab34395c000-2ab343986000 r-xp 00002000 127:8fee 144120918401108337      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libpcre.so.1.2.13
 33: 2ab343986000-2ab34399f000 r--p 0002c000 127:8fee 144120918401108337      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libpcre.so.1.2.13
 33: 2ab34399f000-2ab3439a0000 r--p 00044000 127:8fee 144120918401108337      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libpcre.so.1.2.13
 33: 2ab3439a0000-2ab3439a1000 rw-p 00045000 127:8fee 144120918401108337      /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libpcre.so.1.2.13
 33: 2ab3439a1000-2ab3439a3000 r-xp 00000000 00:25 1248567224                 /usr/lib64/libfreebl3.so
 33: 2ab3439a3000-2ab343ba2000 ---p 00002000 00:25 1248567224                 /usr/lib64/libfreebl3.so
 33: 2ab343ba2000-2ab343ba3000 r--p 00001000 00:25 1248567224                 /usr/lib64/libfreebl3.so
 33: 2ab343ba3000-2ab343ba4000 rw-p 00002000 00:25 1248567224                 /usr/lib64/libfreebl3.so
 33: 2ab344dcc000-2ab344dcd000 ---p 00000000 00:00 0
 33: 2ab344dcd000-2ab344fcd000 rwxp 00000000 00:00 0
 33: 2ab346f4b000-2ab346f63000 r-xp 00000000 00:25 1248567408                 /usr/lib64/libibverbs.so.1.0.0
 33: 2ab346f63000-2ab347162000 ---p 00018000 00:25 1248567408                 /usr/lib64/libibverbs.so.1.0.0
 33: 2ab347162000-2ab347163000 r--p 00017000 00:25 1248567408                 /usr/lib64/libibverbs.so.1.0.0
 33: 2ab347163000-2ab347164000 rw-p 00018000 00:25 1248567408                 /usr/lib64/libibverbs.so.1.0.0
 33: 2ab34736e000-2ab3473d2000 r-xp 00000000 00:25 1248567542                 /usr/lib64/libnl-route-3.so.200.23.0
 33: 2ab3473d2000-2ab3475d1000 ---p 00064000 00:25 1248567542                 /usr/lib64/libnl-route-3.so.200.23.0
 33: 2ab3475d1000-2ab3475d4000 r--p 00063000 00:25 1248567542                 /usr/lib64/libnl-route-3.so.200.23.0
 33: 2ab3475d4000-2ab3475d9000 rw-p 00066000 00:25 1248567542                 /usr/lib64/libnl-route-3.so.200.23.0
 33: 2ab3475d9000-2ab3475db000 rw-p 00000000 00:00 0
 33: 2ab3475db000-2ab3475f9000 r-xp 00000000 00:25 1248567538                 /usr/lib64/libnl-3.so.200.23.0
 33: 2ab3475f9000-2ab3477f9000 ---p 0001e000 00:25 1248567538                 /usr/lib64/libnl-3.so.200.23.0
 33: 2ab3477f9000-2ab3477fb000 r--p 0001e000 00:25 1248567538                 /usr/lib64/libnl-3.so.200.23.0
 33: 2ab3477fb000-2ab3477fc000 rw-p 00020000 00:25 1248567538                 /usr/lib64/libnl-3.so.200.23.0
 33: 2ab348000000-2ab348021000 rw-p 00000000 00:00 0
 33: 2ab348021000-2ab34c000000 ---p 00000000 00:00 0
 33: 2ab34c20c000-2ab34c265000 r-xp 00000000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c265000-2ab34c464000 ---p 00059000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c464000-2ab34c465000 r--p 00058000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c465000-2ab34c467000 rw-p 00059000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c467000-2ab34c471000 r-xp 00000000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c471000-2ab34c671000 ---p 0000a000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c671000-2ab34c672000 r--p 0000a000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c672000-2ab34c673000 rw-p 0000b000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c673000-2ab34c695000 r-xp 00000000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab34c695000-2ab34c895000 ---p 00022000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab34c895000-2ab34c896000 r--p 00022000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab34c896000-2ab34c898000 rw-p 00023000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab3600d4000-2ab3600e0000 r-xp 00000000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3600e0000-2ab3602df000 ---p 0000c000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3602df000-2ab3602e0000 r--p 0000b000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3602e0000-2ab3602e1000 rw-p 0000c000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3602e1000-2ab3602e7000 rw-p 00000000 00:00 0
 33: 2ab360410000-2ab360512000 rw-p 00000000 00:00 0
 33: 2ab3606c9000-2ab3681de000 rw-p 00000000 00:00 0
 33: 7ffce8239000-7ffce8400000 rwxp 00000000 00:00 0                          [stack]
 33: 7ffce8400000-7ffce841a000 rw-p 00000000 00:00 0
 33: 7ffce8587000-7ffce8589000 r-xp 00000000 00:00 0                          [vdso]
 33: ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0                  [vsyscall]
 33:
 33: Program received signal SIGABRT: Process abort signal.
 33:
 33: Backtrace for this error:
 33: #0  0x2ab33d3b73ff in ???
 33: #1  0x2ab33d3b7387 in ???
 33: #2  0x2ab33d3b8a77 in ???
 33: #3  0x2ab33d3f9f66 in ???
 33: #4  0x2ab33d402328 in ???
 33: #5  0x1332889 in _ZN9__gnu_cxx13new_allocatorIP15ompi_datatype_tE10deallocateEPS2_m
 33:    at /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/include/c++/9.2.0/ext/new_allocator.h:128
 33: #6  0x1330261 in _ZNSt16allocator_traitsISaIP15ompi_datatype_tEE10deallocateERS2_PS1_m
 33:    at /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/include/c++/9.2.0/bits/alloc_traits.h:470
 33: #7  0x132cbd9 in ???
 33: #8  0x1329a3b in _ZNSt12_Vector_baseIP15ompi_datatype_tSaIS1_EED2Ev
 33:    at /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/include/c++/9.2.0/bits/stl_vector.h:332
 33: #9  0x1336670 in ???
 33: #10  0x2ab33d3bb059 in ???
 33: #11  0x2ab3371ef582 in ???
bash-4.2$
 33: 2ab348021000-2ab34c000000 ---p 00000000 00:00 0
 33: 2ab34c20c000-2ab34c265000 r-xp 00000000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c265000-2ab34c464000 ---p 00059000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c464000-2ab34c465000 r--p 00058000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c465000-2ab34c467000 rw-p 00059000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c467000-2ab34c471000 r-xp 00000000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c471000-2ab34c671000 ---p 0000a000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c671000-2ab34c672000 r--p 0000a000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c672000-2ab34c673000 rw-p 0000b000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c673000-2ab34c695000 r-xp 00000000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab34c695000-2ab34c895000 ---p 00022000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab34c895000-2ab34c896000 r--p 00022000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab34c896000-2ab34c898000 rw-p 00023000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab3600d4000-2ab3600e0000 r-xp 00000000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3600e0000-2ab3602df000 ---p 0000c000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3602df000-2ab3602e0000 r--p 0000b000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3602e0000-2ab3602e1000 rw-p 0000c000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3602e1000-2ab3602e7000 rw-p 00000000 00:00 0
 33: 2ab360410000-2ab360512000 rw-p 00000000 00:00 0
 33: 2ab3606c9000-2ab3681de000 rw-p 00000000 00:00 0
 33: 7ffce8239000-7ffce8400000 rwxp 00000000 00:00 0                          [stack]
 33: 7ffce8400000-7ffce841a000 rw-p 00000000 00:00 0
 33: 7ffce8587000-7ffce8589000 r-xp 00000000 00:00 0                          [vdso]
 33: ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0                  [vsyscall]
 33:
 33: Program received signal SIGABRT: Process abort signal.
 33:
 33: Backtrace for this error:
 33: #0  0x2ab33d3b73ff in ???
 33: #1  0x2ab33d3b7387 in ???
 33: #2  0x2ab33d3b8a77 in ???
 33: #3  0x2ab33d3f9f66 in ???
 33: #4  0x2ab33d402328 in ???
 33: #5  0x1332889 in _ZN9__gnu_cxx13new_allocatorIP15ompi_datatype_tE10deallocateEPS2_m
 33:    at /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/include/c++/9.2.0/ext/new_allocator.h:128
 33: #6  0x1330261 in _ZNSt16allocator_traitsISaIP15ompi_datatype_tEE10deallocateERS2_PS1_m
 33:    at /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/include/c++/9.2.0/bits/alloc_traits.h:470
 33: #7  0x132cbd9 in ???
 33: #8  0x1329a3b in _ZNSt12_Vector_baseIP15ompi_datatype_tSaIS1_EED2Ev
 33:    at /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/include/c++/9.2.0/bits/stl_vector.h:332
 33: #9  0x1336670 in ???
 33: #10  0x2ab33d3bb059 in ???
 33: #11  0x2ab3371ef582 in ???
bash-4.2$
 33: 2ab348000000-2ab348021000 rw-p 00000000 00:00 0
 33: 2ab348021000-2ab34c000000 ---p 00000000 00:00 0
 33: 2ab34c20c000-2ab34c265000 r-xp 00000000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c265000-2ab34c464000 ---p 00059000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c464000-2ab34c465000 r--p 00058000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c465000-2ab34c467000 rw-p 00059000 00:25 1248567498                 /usr/lib64/libmlx5.so.1.0.0
 33: 2ab34c467000-2ab34c471000 r-xp 00000000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c471000-2ab34c671000 ---p 0000a000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c671000-2ab34c672000 r--p 0000a000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c672000-2ab34c673000 rw-p 0000b000 00:25 1248567568                 /usr/lib64/libnuma.so.1.0.0
 33: 2ab34c673000-2ab34c695000 r-xp 00000000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab34c695000-2ab34c895000 ---p 00022000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab34c895000-2ab34c896000 r--p 00022000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab34c896000-2ab34c898000 rw-p 00023000 00:25 1248567495                 /usr/lib64/libmlx4-rdmav2.so
 33: 2ab3600d4000-2ab3600e0000 r-xp 00000000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3600e0000-2ab3602df000 ---p 0000c000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3602df000-2ab3602e0000 r--p 0000b000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3602e0000-2ab3602e1000 rw-p 0000c000 00:25 1248567554                 /usr/lib64/libnss_files-2.17.so
 33: 2ab3602e1000-2ab3602e7000 rw-p 00000000 00:00 0
 33: 2ab360410000-2ab360512000 rw-p 00000000 00:00 0
 33: 2ab3606c9000-2ab3681de000 rw-p 00000000 00:00 0
 33: 7ffce8239000-7ffce8400000 rwxp 00000000 00:00 0                          [stack]
 33: 7ffce8400000-7ffce841a000 rw-p 00000000 00:00 0
 33: 7ffce8587000-7ffce8589000 r-xp 00000000 00:00 0                          [vdso]
 33: ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0                  [vsyscall]
 33:
 33: Program received signal SIGABRT: Process abort signal.
 33:
 33: Backtrace for this error:
 33: #0  0x2ab33d3b73ff in ???
 33: #1  0x2ab33d3b7387 in ???
 33: #2  0x2ab33d3b8a77 in ???
 33: #3  0x2ab33d3f9f66 in ???
 33: #4  0x2ab33d402328 in ???
 33: #5  0x1332889 in _ZN9__gnu_cxx13new_allocatorIP15ompi_datatype_tE10deallocateEPS2_m
 33:    at /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/include/c++/9.2.0/ext/new_allocator.h:128
 33: #6  0x1330261 in _ZNSt16allocator_traitsISaIP15ompi_datatype_tEE10deallocateERS2_PS1_m
 33:    at /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/include/c++/9.2.0/bits/alloc_traits.h:470
 33: #7  0x132cbd9 in ???
 33: #8  0x1329a3b in _ZNSt12_Vector_baseIP15ompi_datatype_tSaIS1_EED2Ev
 33:    at /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/include/c++/9.2.0/bits/stl_vector.h:332
 33: #9  0x1336670 in ???
 33: #10  0x2ab33d3bb059 in ???
 33: #11  0x2ab3371ef582 in ???

DusanJovic-NOAA commented 9 months ago

This looks to me like a mismatch in libstdc++ library versions.

$ ldd /scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu/fv3.exe | grep libstdc++
        libstdc++.so.6 => /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6 (0x00007f774960c000)

$ ls -l /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6
lrwxrwxrwx 1 role.apps apps 19 Feb 12  2020 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6 -> libstdc++.so.6.0.27

which is consistent with the error at the end of the stacktrace. The path of the gnu compiler used is /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqd..... And this compiler is using libstdc++.so.6.0.27:

While at the runtime, model fails somewhere in libstdc++.so.6.0.28 from

 /scratch1/NCEPDEV/jcsda/jedipara/spack-stack/miniconda-3.9.12/lib/libstdc++.so.6.0.28

Maybe this is not the actual cause of the crash, but it would be better if exactly the same versions are used at build and run time.

Can you run the model without loading miniconda module. Why is miniconda needed at runtime?

climbfuji commented 9 months ago

Thanks for taking a look so quickly @DusanJovic-NOAA! I don't think miniconda is needed at runtime, and I am giving this a try now.

As a side note, good news is that the whole miniconda / external python for spack-stack is going away very soon.

climbfuji commented 9 months ago

No problem running w/o miniconda, so that change should be made regardless, across the board (all platforms if possible).

Bad news is that it still crashes.

> pwd
/scratch1/NCEPDEV/stmp2/Dom.Heinzeller/FV3_RT/rt_638/cpld_debug_p8_gnu
> cat err | grep libstd
151: 2aeea7eda000-2aeea80a3000 r-xp 00000000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
151: 2aeea80a3000-2aeea82a3000 ---p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
151: 2aeea82a3000-2aeea82ae000 r--p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
151: 2aeea82ae000-2aeea82b1000 rw-p 001d4000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
154: 2b9c2a88e000-2b9c2aa57000 r-xp 00000000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
154: 2b9c2aa57000-2b9c2ac57000 ---p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
154: 2b9c2ac57000-2b9c2ac62000 r--p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
154: 2b9c2ac62000-2b9c2ac65000 rw-p 001d4000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
153: 2b7d3aba5000-2b7d3ad6e000 r-xp 00000000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
153: 2b7d3ad6e000-2b7d3af6e000 ---p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
153: 2b7d3af6e000-2b7d3af79000 r--p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
153: 2b7d3af79000-2b7d3af7c000 rw-p 001d4000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
152: 2b43b80ed000-2b43b82b6000 r-xp 00000000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
152: 2b43b82b6000-2b43b84b6000 ---p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
152: 2b43b84b6000-2b43b84c1000 r--p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
152: 2b43b84c1000-2b43b84c4000 rw-p 001d4000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
159: 2b5e2064b000-2b5e20814000 r-xp 00000000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
159: 2b5e20814000-2b5e20a14000 ---p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
159: 2b5e20a14000-2b5e20a1f000 r--p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
159: 2b5e20a1f000-2b5e20a22000 rw-p 001d4000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
157: 2b1388394000-2b138855d000 r-xp 00000000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
157: 2b138855d000-2b138875d000 ---p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
157: 2b138875d000-2b1388768000 r--p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
157: 2b1388768000-2b138876b000 rw-p 001d4000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
155: 2ae72b465000-2ae72b62e000 r-xp 00000000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
155: 2ae72b62e000-2ae72b82e000 ---p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
155: 2ae72b82e000-2ae72b839000 r--p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
155: 2ae72b839000-2ae72b83c000 rw-p 001d4000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
156: 2b30c7a32000-2b30c7bfb000 r-xp 00000000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
156: 2b30c7bfb000-2b30c7dfb000 ---p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
156: 2b30c7dfb000-2b30c7e06000 r--p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
156: 2b30c7e06000-2b30c7e09000 rw-p 001d4000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
158: 2ba07ad49000-2ba07af12000 r-xp 00000000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
158: 2ba07af12000-2ba07b112000 ---p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
158: 2ba07b112000-2ba07b11d000 r--p 001c9000 00:2c 1281167150                 /apps/spack/linux-centos7-x86_64/gcc-4.8.5/gcc-9.2.0-wqdecm4rkyyhejagxwmnabt6lscgm45d/lib64/libstdc++.so.6.0.27
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ufs-community / ufs-weather-model