Error while setting solution output with refiner = pylith.topology.RefineUniform

[demiangomez]

While running one of the benchmark problems (reverseslip_tet4_0250m) with refiner = pylith.topology.RefineUniform, the following error is reported while setting up solution output:

HDF5-DIAG: Error detected in HDF5 (1.8.8) MPI-process 0:
#000: ../../hdf5-1.8.8/src/H5Dio.c line 266 in H5Dwrite(): can't write data
major: Dataset
minor: Write failed
#1: ../../hdf5-1.8.8/src/H5Dio.c line 671 in H5D_write(): can't write data
major: Dataset
minor: Write failed

See attached file for complete stdout and stderr. This problem occurred both in a cluster and a desktop computer. Pylith version 2.1.0 (Linux ~ x86_64 (64 bit)) binaries downloaded from the CIG website). Benchmark runs correctly without setting refiner = pylith.topology.RefineUniform

output_i.txt

[knepley]

On Fri, Feb 5, 2016 at 11:09 AM, demiangomez [email protected]
wrote:

While running one of the benchmark problems (reverseslip_tet4_0250m) with
refiner = pylithtopologyRefineUniform, the following error is reported
while setting up solution output:

HDF5-DIAG: Error detected in HDF5 (188) MPI-process 0:
#000: //hdf5-188/src/H5Dioc line 266 in H5Dwrite(): can't write data
major: Dataset
minor: Write failed
#1 #1:
//hdf5-188/src/H5Dioc line 671 in H5D_write(): can't write data
major: Dataset
minor: Write failed

See attached file for complete stdout and stderr This problem occurred
both in a cluster and a desktop computer Pylith version 210 (Linux ~ x86_64
(64 bit)) binaries downloaded from the CIG website) Benchmark runs
correctly without setting refiner = pylithtopologyRefineUniform

We will look at this at our weekly code review on Tuesday.

Thanks,

 Matt

output_itxt
https://githubcom/geodynamics/pylith/files/119526/output_itxt

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What most experimenters take for granted before they begin their
experiments is infinitely more interesting than any results to which their
experiments lead.
-- Norbert Wiener

[baagaard]

The input/parameter files for that benchmark have not been updated to
the current version of PyLith. All of the examples included in the
PyLith source and binary distributions are always kept up to date, but
we don't have the resources to keep all of the benchmark input files up
to date. We would welcome help from the community in updating the
benchmark input files.

Regards,
Brad

On 2/5/16 9:09 AM, demiangomez wrote:

While running one of the benchmark problems (reverseslip_tet4_0250m)
with refiner = pylithtopologyRefineUniform, the following error is
reported while setting up solution output:

HDF5-DIAG: Error detected in HDF5 (188) MPI-process 0:
#000: //hdf5-188/src/H5Dioc line 266 in H5Dwrite(): can't write data
major: Dataset
minor: Write failed
#1 #1:
//hdf5-188/src/H5Dioc line 671 in H5D_write(): can't write data
major: Dataset
minor: Write failed

See attached file for complete stdout and stderr This problem occurred
both in a cluster and a desktop computer Pylith version 210 (Linux ~
x86_64 (64 bit)) binaries downloaded from the CIG website) Benchmark
runs correctly without setting refiner = pylithtopologyRefineUniform

output_itxt https://githubcom/geodynamics/pylith/files/119526/output_itxt

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[demiangomez]

Hi Brad,

Sure, I can provide the files I'm using to run the benchmarks. However, the
reverse no gravity benchmark did not require any modifications. I can make
a contribution by verifying the rest of the benchmarks too. I'm also
working on another benchmark test (using a spherical mesh) that might be
interesting to add as either an example or benchmark once I figure it out.

Regards,
Demián

On Fri, Feb 5, 2016 at 12:31 PM, baagaard [email protected] wrote:

The input/parameter files for that benchmark have not been updated to
the current version of PyLith. All of the examples included in the
PyLith source and binary distributions are always kept up to date, but
we don't have the resources to keep all of the benchmark input files up
to date. We would welcome help from the community in updating the
benchmark input files.

Regards,
Brad

On 2/5/16 9:09 AM, demiangomez wrote:

While running one of the benchmark problems (reverseslip_tet4_0250m)
with refiner = pylithtopologyRefineUniform, the following error is
reported while setting up solution output:

HDF5-DIAG: Error detected in HDF5 (188) MPI-process 0:
#000: //hdf5-188/src/H5Dioc line 266 in H5Dwrite(): can't write data
major: Dataset
minor: Write failed
#1 #1:
//hdf5-188/src/H5Dioc line 671 in H5D_write(): can't write data
major: Dataset
minor: Write failed

See attached file for complete stdout and stderr This problem occurred
both in a cluster and a desktop computer Pylith version 210 (Linux ~
x86_64 (64 bit)) binaries downloaded from the CIG website) Benchmark
runs correctly without setting refiner = pylithtopologyRefineUniform

output_itxt <
https://githubcom/geodynamics/pylith/files/119526/output_itxt>

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#14 (comment).

[baagaard-usgs]

See geodynamics/pylith_benchmarks#1