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<div dir="ltr">Hi Zhang,<br>
<br>
Check to make sure that the version of <i>HDF5</i> you're using is parallelized. You can see more about using parallel
<i>HDF5</i> if you cmd+F search "parallel HDF5" in the user manual (<a href="http://flash.uchicago.edu/site/flashcode/user_support/flash4_ug_4p5.pdf">http://flash.uchicago.edu/site/flashcode/user_support/flash4_ug_4p5.pdf</a>). In order to use the laser energy
deposition in <i class="">FLASH,</i> this is required.</div>
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<div dir="ltr">That version of <i>HDF5</i> should be pretty good (1.8.17). You can check to see if it is parallel but open, or checking to see if the value is "TRUE" or "YES" or something like that via </div>
<div dir="ltr"><font face="monospace, monospace"><br>
</font></div>
<div dir="ltr"><font face="monospace, monospace">grep "Parallel HDF5" /path/to/hdf5/lib/libhdf5.settings</font></div>
<div dir="ltr"><font face="monospace, monospace"><br>
</font></div>
<div dir="ltr"><font face="arial, helvetica, sans-serif">Effectively you want to make sure that in that file, the version of
<i>HDF5</i> you've built, or the system has built is parallelized. If it isn't, I suppose you could make your own version in your home directory given your user permissions, or just ask your system administrator to build it for you.<br>
</font><br>
I recommend reading section <b>17.4.10.4 LaserIO Runtime Parameters and Usage</b> in the user manual for more information.</div>
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<div>Hopefully, this alleviates the problem. If not, make sure your path to the same library is correct in your
<i>Makefile.h</i>. For instance, sometimes people make the mistake of leaving <i>
/lib</i> on the end.</div>
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<div>Good luck!</div>
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<div dir="ltr">Best,<br>
Marissa Adams<br>
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<div dir="ltr"><font face="monospace, monospace" size="1" color="#000000">--- <br>
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<div dir="ltr"><font size="1" face="monospace, monospace" color="#000000">Marissa Adams</font></div>
<div><font size="1" face="monospace, monospace" color="#000000">PhD Student</font></div>
<div dir="ltr"><font face="monospace, monospace" size="1" color="#000000">Website: <a href="http://www.pas.rochester.edu/~madams/" target="_blank">http://www.pas.rochester.edu/~madams</a></font></div>
<div><font face="monospace, monospace" size="1" color="#000000">University of Rochester</font></div>
<div dir="ltr"><font size="1" face="monospace, monospace" color="#000000">Department of Physics & Astronomy</font></div>
<div dir="ltr"><font size="1" face="monospace, monospace"><font color="#000000">371 Bausch & Lomb Hall</font></font></div>
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<div class="gmail_quote">
<div dir="ltr">On Wed, Oct 10, 2018 at 9:17 AM zdy0903 <<a href="mailto:zdy0903@stu.xjtu.edu.cn">zdy0903@stu.xjtu.edu.cn</a>> wrote:<br>
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<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<p><span style="font-family:SimSun"><span style="font-size:14px">Hello!</span></span>
</p>
<p><span style="font-family:SimSun"><span style="font-size:14px"> I got some problems when I
</span><span style="font-size:14px">run the LaserSlab simulation in Flash4.4 with HDF5-1.8.17. It is fine when I set up. And after I execute</span>
<span style="font-size:14px">make. </span><span style="font-size:14px"></span></span><span style="font-size:14px"></span><span style="font-size:14px"></span><span style="font-size:14px"></span><span style="font-size:14px"></span><span style="font-size:14px"></span><span style="font-family:SimSun;font-size:14px">It
meet some errors just like</span> </p>
<p><span style="font-family:SimSun"><br>
</span></p>
<p><span style="font-family:SimSun"><br>
</span></p>
<p><span style="font-family:SimSun"><strong>io_h5file_interface.o: In function `io_h5init_file_':</strong><br>
<strong>/home/zdy/Desktop/FLASH4.4/object/io_h5file_interface.c:165: undefined reference to `H5Pset_fapl_mpio'</strong><br>
<strong>io_h5file_interface.o: In function `io_h5open_file_for_read_':</strong><br>
<strong>/home/zdy/Desktop/FLASH4.4/object/io_h5file_interface.c:273: undefined reference to `H5Pset_fapl_mpio'</strong><br>
<strong>io_h5read_unknowns.o: In function `io_h5read_unknowns_':</strong><br>
<strong>/home/zdy/Desktop/FLASH4.4/object/io_h5read_unknowns.c:53: undefined reference to `H5Pset_dxpl_mpio'</strong><br>
<strong>io_h5write_unknowns.o: In function `io_h5write_unknowns_':</strong><br>
<strong>/home/zdy/Desktop/FLASH4.4/object/io_h5write_unknowns.c:156: undefined reference to `H5Pset_dxpl_mpio'</strong><br>
<strong>io_h5write_unknowns_sp.o: In function `io_h5write_unknowns_sp_':</strong><br>
<strong>/home/zdy/Desktop/FLASH4.4/object/io_h5write_unknowns_sp.c:237: undefined reference to `H5Pset_dxpl_mpio'</strong><br>
<strong>collect2: error: ld returned 1 exit status</strong><br>
<strong>Makefile:353: recipe for target 'flash4' failed</strong><br>
<strong>make: *** [flash4] Error 1</strong><br>
</p>
<p><br>
</p>
<p>Is there anyone knows what it is about? Thanks a lot! </p>
<p><br>
</p>
<p><span style="font-size:14px">Zhang</span> </p>
<p><br>
</p>
</span>
<p></p>
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