[FLASH-USERS] Runtime error when adding 3rd species to LaserSlab

[Kelin KO]

Hi all,

I am a novice FLASH user and am trying to construct a composite target from
the default LaserSlab problem. My configuration is a thin aluminum layer
sandwiched between two polystyrene layers. Initially, I modified the if
statements in initblock to define 4 regions (chamber, 1st/2nd/3rd target
layer) and modified the other init files as well as Config and .par to
reflect this. I only used the two species defined in the default LaserSlab
problem, using CHAM_SPEC (helium) for the middle target layer, just to
establish that I changed the geometry correctly). This compiles and runs as
expected.

However, when I tried to define a third species, it compiled but gave a
strange error at runtime that I'm struggling to find the cause of (see
attached .Log file):

HDF5-DIAG: Error detected in HDF5 (1.8.17) MPI-process 0:
  #000: H5Ddeprec.c line 193 in H5Dcreate1(): unable to create dataset
    major: Dataset
    minor: Unable to initialize object
  #001: H5Dint.c line 455 in H5D__create_named(): unable to create and link
to dataset
    major: Dataset
    minor: Unable to initialize object
  #002: H5L.c line 1638 in H5L_link_object(): unable to create new link to
object
    major: Links
    minor: Unable to initialize object
  #003: H5L.c line 1882 in H5L_create_real(): can't insert link
    major: Symbol table
    minor: Unable to insert object
  #004: H5Gtraverse.c line 861 in H5G_traverse(): internal path traversal
failed
    major: Symbol table
    minor: Object not found
  #005: H5Gtraverse.c line 641 in H5G_traverse_real(): traversal operator
failed
    major: Symbol table
    minor: Callback failed
  #006: H5L.c line 1674 in H5L_link_cb(): name already exists
    major: Symbol table
    minor: Object already exists
flash4: io_h5create_dataset.c:61: io_h5create_dataset: Assertion `dataset
>= 0' failed.
forrtl: error (76): Abort trap signal
Image              PC                Routine            Line        Source

flash4             0000000000B50CC1  tbk_trace_stack_i     Unknown  Unknown
flash4             0000000000B4EDFB  tbk_string_stack_     Unknown  Unknown
flash4             0000000000AFE444  Unknown               Unknown  Unknown
flash4             0000000000AFE256  Unknown               Unknown  Unknown
flash4             0000000000AA7569  Unknown               Unknown  Unknown
flash4             0000000000AAB374  Unknown               Unknown  Unknown
libpthread-2.17.s  00002B9C6787E5D0  Unknown               Unknown  Unknown
libc-2.17.so       00002B9C67DC3207  gsignal               Unknown  Unknown
libc-2.17.so       00002B9C67DC48F8  abort                 Unknown  Unknown
libc-2.17.so       00002B9C67DBC026  Unknown               Unknown  Unknown
libc-2.17.so       00002B9C67DBC0D2  Unknown               Unknown  Unknown
flash4             0000000000671D09  Unknown               Unknown  Unknown
flash4             000000000066A53A  Unknown               Unknown  Unknown
flash4             000000000066A995  Unknown               Unknown  Unknown
flash4             000000000067A45C  Unknown               Unknown  Unknown
flash4             000000000047F1D8  Unknown               Unknown  Unknown
flash4             000000000047EAA1  Unknown               Unknown  Unknown
flash4             0000000000416A21  Unknown               Unknown  Unknown
flash4             000000000043CD5E  Unknown               Unknown  Unknown
flash4             000000000040839E  Unknown               Unknown  Unknown
libc-2.17.so       00002B9C67DAF3D5  __libc_start_main     Unknown  Unknown
flash4             00000000004082A9  Unknown               Unknown  Unknown
/var/spool/slurm/job13017474/slurm_script: line 22: 23813 Aborted
      ./flash4


All I have changed from the last working configuration is that I added a
TARG2_SPEC to the initblock file (and used it in the if statement), defined
all the necessary variables for "targ2" in the init/Config/par files by
copying those for the "targ" species and renaming, and changed my ./setup
line to reflect the new species (changed -species=targ,cham to
-species=cham,targ,targ2).  The log file created by flash.par does not
mention any errors, it just ends after the creation of the first checkpoint.

Does anyone have some insight as to where I can begin looking to debug
this? I have gone through all the files I changed using the compare plugin
in notepad++ and verified that the only changes are the addition of the new
variables and that they are syntactically correct, and as I said the
executable compiles without issue, so I don't think that's where the
problem is.

Thanks so much for any guidance you can provide and for your time.

Best,
Kelin Kurzer-Ogul

---------------------------

Kelin Kurzer-Ogul

Graduate Student

Department of Mechanical Engineering

University of Rochester
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