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<p>I don't think this is by default per say. I use batchtools
(instead of simfactory) exactly for this reason and discourage new
users from restarting in the same directory as the parent
checkpoints to avoid this exact outcome. An additional issue that
can arise is if a job is terminated before the walltime such that
the data stored in ASCII/HDF5 goes beyond the last checkpoint are
potential ingestion issues due to data mismatching from the
restart. I think overall Kuibit handles this well, but it is has
been an issue in the past for some users before learning to
separate restarts into individual directories.</p>
<p>Cheers,</p>
<p>Samuel</p>
<div class="moz-cite-prefix">On 12/16/22 10:01 AM, Bruno Giacomazzo
wrote:<br>
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<div><span style="font-family:"Andale Mono"">-
Safety feature to avoid HDF5 files from being
corrupted</span><font face="Andale Mono"><span
style="font-style:normal"><br>
</span></font></div>
<div><font face="Andale Mono"><span
style="font-style:normal"> * Leo requests a feature
that would allow the user to e.g., generate one</span></font></div>
<div><font face="Andale Mono"><span
style="font-style:normal"> output file per
restart. With kuibit, there was interested in
switching from</span></font></div>
<div><font face="Andale Mono"><span
style="font-style:normal"> the ASCII data files
to the HDF5 in our research group. However, in a
recent</span></font></div>
<div><font face="Andale Mono"><span
style="font-style:normal"> simulation it turned
out that a node failure caused a crash as one of the</span></font></div>
<div><font face="Andale Mono"><span
style="font-style:normal"> HDF5 was being written
to and we lost all data for an important</span></font></div>
<div><font face="Andale Mono"><span
style="font-style:normal"> gridfunction. If one
HDF5 file was written per restart (or another safety</span></font></div>
<div><font face="Andale Mono"><span
style="font-style:normal"> feature was in place),
then this would have not been an issue, as only one</span></font></div>
<div><font face="Andale Mono"><span
style="font-style:normal"> of the chunks of data
would have been corrupted. Leo will open a ticket</span></font></div>
<div><font face="Andale Mono"><span
style="font-style:normal"> about this.</span></font></div>
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<div>Isn't this done automatically when using simfactory? I
have my hdf5 data written in the separate output-00??
directories (the ones generated by symfactory at each
restart) so that if one run has problems I do not lose all
the data.</div>
<div><br>
</div>
<div>Cheers,</div>
<div>Bruno</div>
<div><br>
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-- <br>
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<p><font color="#000000">Pr<font face="arial,
sans-serif">of. Bruno Giacomazzo<br>
Department of Physics<br>
University of Milano-Bicocca<br>
</font></font><span style="color:rgb(0,0,0)"><font
face="arial, sans-serif">Piazza della
Scienza 3<br>
</font></span><span style="color:rgb(0,0,0)"><font
face="arial, sans-serif">20126 Milano<br>
</font></span><span
style="font-size:12.8px;color:rgb(0,0,0)">Italy</span></p>
<p><font color="#000000"><span
style="font-size:12.8px">email: </span><span
style="font-size:12.8px"><a
href="mailto:bruno.giacomazzo@unimib.it"
target="_blank" moz-do-not-send="true"
class="moz-txt-link-freetext">bruno.giacomazzo@unimib.it</a><br>
</span><span style="font-size:12.8px">phone:
(+39) 02 6448 2321</span></font><br>
<font color="#000000"><span
style="font-size:12.8px">web: </span></font><span
style="color:rgb(0,0,0);font-size:12.8px"><a
href="http://www.brunogiacomazzo.org/"
style="font-size:12.8px" target="_blank"
moz-do-not-send="true"
class="moz-txt-link-freetext">http://www.brunogiacomazzo.org</a></span></p>
<p><font color="#000000">---------------------------------------------------------------------<br>
<span style="font-size:12.8px">There are only
10 types of people in the world:<br>
</span><span style="font-size:12.8px">Those
who understand binary, and those who don't<br>
</span><span style="font-size:12.8px">----------------------------------------------------------------------<br>
</span></font></p>
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