<html><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"/><title></title></head><body><p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">Hello,<br /></span></p>
<p style="margin: 0px;"> </p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">I have installed the modules:</span></p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"> GCC/7.2.0 5)<br />OpenMPI/3.0.0-GCC-7.2.0 <br />FLASH/4.5-OpenMPI-3.0.0-GCC-7.2.0</span></p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">hypre/2.11.2-OpenMPI-3.0.0-GCC-7.2.0</span></p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">HDF5/1.10.1-OpenMPI-3.0.0-GCC-7.2.0 for parallel output</span></p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">either HDF5/1.10.2-GCC-7.2.0 for serial one</span></p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">parallel_netcdf/1.9.0-OpenMPI-3.0.0-GCC-7.2.0 on our cluster.<br /></span></p>
<p style="margin: 0px;"> </p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">The Sedov example with serial HDF5 works as expected, </span></p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">but using the HDF5/1.10.1-OpenMPI-3.0.0-GCC-7.2.0 module instead of serial IO </span></p>
<p style="margin: 0px;"> </p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">(./setup Sedov -auto +parallelio, putting the right path for HDF5/1.10.1-OpenMPI-3.0.0-GCC-7.2.0</span></p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">in Makefile.h)</span></p>
<p style="margin: 0px;"> </p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">the job will be aborted at first write of a ckeckpoint file. <br /></span></p>
<p style="margin: 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">Part of the error output:</span></p>
<p style="margin: 0px 5px 0px 0px;">HDF5-DIAG: Error detected in HDF5 (1.10.1) MPI-process 3:<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #000: H5Ddeprec.c line 187 in H5Dopen1(): not a location<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Invalid arguments to routine<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Inappropriate type<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #001: H5Gloc.c line 251 in H5G_loc(): invalid object ID<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Invalid arguments to routine<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Bad value<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span>flash4: io_h5_attribute.c:49: io_h5_attribute_create: Assertion `dsetID >= 0' failed.</p>
<p style="margin: 0px 5px 0px 0px;">Program received signal SIGABRT: Process abort signal.<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span></p>
<p style="margin: 0px 5px 0px 0px;"> </p>
<p style="margin: 0px 5px 0px 0px;">A similar situation I observed with the more complex example LaserSlab:</p>
<p style="margin: 0px 5px 0px 0px;"> </p>
<p style="margin: 0px 5px 0px 0px;">HDF5-DIAG: Error detected in HDF5 (1.10.1) MPI-process 4:<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #000: H5Dio.c line 269 in H5Dwrite(): can't prepare for writing data<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Dataset<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #001: H5Dio.c line 345 in H5D__pre_write(): can't write data<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Dataset<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #002: H5Dio.c line 791 in H5D__write(): can't write data<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Dataset<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #003: H5Dmpio.c line 527 in H5D__contig_collective_write(): couldn't finish shared collective MPI-IO<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Low-level I/O<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #004: H5Dmpio.c line 1398 in H5D__inter_collective_io(): couldn't finish collective MPI-IO<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Low-level I/O<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Can't get value<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #005: H5Dmpio.c line 1442 in H5D__final_collective_io(): optimized write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Dataset<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #006: H5Dmpio.c line 295 in H5D__mpio_select_write(): can't finish collective parallel write<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Low-level I/O<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #007: H5Fio.c line 195 in H5F_block_write(): write through page buffer failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Low-level I/O<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #008: H5PB.c line 1041 in H5PB_write(): write through metadata accumulator failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Page Buffering<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #009: H5Faccum.c line 834 in H5F__accum_write(): file write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Low-level I/O<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #010: H5FDint.c line 308 in H5FD_write(): driver write request failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Virtual File Layer<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> #011: H5FDmpio.c line 1864 in H5FD_mpio_write(): file write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> major: Low-level I/O<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span> minor: Write failed<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span>flash4: io_h5_xfer_mesh_dataset.c:210: io_h5_xfer_mesh_dataset: Assertion `err >= 0' failed.</p>
<p style="margin: 0px 5px 0px 0px;">Program received signal SIGABRT: Process abort signal.<span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none"><br /></span></p>
<p style="margin: 0px 5px 0px 0px;"> </p>
<p style="margin: 0px 5px 0px 0px;"><span style="font-family:arial,helvetica,sans-serif;font-size:10pt;color:#000000;text-decoration:none">How can I overcome these problems? </span></p>
<p style="margin: 0px 5px 0px 0px;">Thanks in advancce,</p>
<p style="margin: 0px 5px 0px 0px;">Theo</p></body></html>