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<p>Ah sorry, I see, thank you Ryan and John. <br>
</p>
<p>Unfortunately, this is not the solution. I already had<br>
</p>
<p><br>
</p>
<span>F90FLAGS = -I ${HDF5_PATH}/include -DH5_USE_16_API</span><br>
<span>CFLAGS_HDF5 = -I${HDF5_PATH}/include -DH5_USE_16_API</span><br>
<br>
<p>in my Makefile.h in<span> flash4.4/sites/prodimo. I have attached my complete Makefile.h</span><br>
</p>
<br>
Peter<br>
<br>
<div style="color: rgb(0, 0, 0);">
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<div id="divRplyFwdMsg" dir="ltr"><font style="font-size:11pt" color="#000000" face="Calibri, sans-serif"><b>From:</b> Ryan Farber <rjfarber@umich.edu><br>
<b>Sent:</b> 10 October 2017 15:50<br>
<b>To:</b> Peter Woitke<br>
<b>Cc:</b> Mark Richardson; flash-users<br>
<b>Subject:</b> Re: [FLASH-USERS] first model: hdf5 error</font>
<div> </div>
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<div dir="ltr">Hi Peter,
<div><br>
</div>
<div>I believe Mark was referring to Makefile.h in the sites directory. Unless you are on a system known by FLASH, the relevant Makefile.h should be located at</div>
<div><br>
</div>
<div>/PATH_TO_FLASH/sites/Prototype<wbr>s/Linux/Makefile.h</div>
<div class="gmail_extra"><br>
</div>
<div class="gmail_extra">Best,<br clear="all">
<div>
<div class="m_-4894139884852167578m_-664563488632620907gmail_signature">
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<div>
<div dir="ltr">
<div dir="ltr">--------
<div>Ryan</div>
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</div>
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</div>
<br>
<div class="gmail_quote">On Tue, Oct 10, 2017 at 7:47 AM, Peter Woitke <span dir="ltr">
<<a href="mailto:pw31@st-andrews.ac.uk" target="_blank">pw31@st-andrews.ac.uk</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex; border-left:1px #ccc solid; padding-left:1ex">
<div dir="ltr">
<div id="m_-4894139884852167578m_-664563488632620907m_3595005675077883806divtagdefaultwrapper" dir="ltr" style="font-size:12pt; color:#000000; font-family:Calibri,Helvetica,sans-serif">
<p>Hi Mark,</p>
<p><br>
</p>
<p>thanks for that. However, I cannot find any Makefile.h, not before nor after ./configure --prefix=/home/star/pw31/softw<wbr>are/hdf5 --enable-fortran --enable-parallel.</p>
All I see is a Makefile.in and a Makefile, but none of them have entries as you listed.
<p>Any idea?</p>
<p><br>
</p>
<p> Peter<br>
</p>
<p><br>
</p>
<div style="color:rgb(0,0,0)">
<hr style="display:inline-block; width:98%">
<div id="m_-4894139884852167578m_-664563488632620907m_3595005675077883806divRplyFwdMsg" dir="ltr">
<font style="font-size:11pt" color="#000000" face="Calibri, sans-serif"><b>From:</b> Mark Richardson <<a href="mailto:mark.richardson.work@gmail.com" target="_blank">mark.richardson.work@gmail.co<wbr>m</a>><br>
<b>Sent:</b> 10 October 2017 15:38<br>
<b>To:</b> Peter Woitke<br>
<b>Cc:</b> flash-users<br>
<b>Subject:</b> Re: [FLASH-USERS] first model: hdf5 error</font>
<div> </div>
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<div class="m_-4894139884852167578m_-664563488632620907h5">
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<div dir="ltr">Hi Peter,
<div><br>
</div>
<div> it might be because you haven't flagged HDF5 to use the version 1.6 setup. In my Makefile.h I add DH5_USE_16_API to the following definitions:</div>
<div> F90FLAGS</div>
<div> CFLAGS_HDF5</div>
<div> </div>
<div>Perhaps that will solve your problem,</div>
<div> -Mark</div>
</div>
<div class="gmail_extra"><br>
<div class="gmail_quote">On 10 October 2017 at 10:33, Peter Woitke <span dir="ltr">
<<a href="mailto:pw31@st-andrews.ac.uk" target="_blank">pw31@st-andrews.ac.uk</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex; border-left:1px #ccc solid; padding-left:1ex">
Hi there,<br>
<br>
I just downloaded and compiled mpich, hdf5 and flash, and I am getting run-time error ...<br>
<br>
HDF5-DIAG: Error detected in HDF5 (1.10.1) MPI-process 0:<br>
#000: H5Ddeprec.c line 128 in H5Dcreate1(): not a location ID<br>
major: Invalid arguments to routine<br>
minor: Inappropriate type<br>
#001: H5Gloc.c line 251 in H5G_loc(): invalid object ID<br>
major: Invalid arguments to routine<br>
minor: Bad value<br>
flash4: io_h5create_dataset.c:57: io_h5create_dataset: Assertion `dataset <br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex; border-left:1px #ccc solid; padding-left:1ex">
= 0'<br>
</blockquote>
<br>
I have tested my mpich and hdf5 installations and they have passed all tests. I am listing my installation commands below. Maybe "enable-parallel" is not a good idea? My runSedov directory has<br>
ugo+rw permissions.<br>
<br>
I read in another FLASH-USER entry that one should try<br>
<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex; border-left:1px #ccc solid; padding-left:1ex">
./setup -auto Sedov +ug<br>
</blockquote>
<br>
This results in another run-time error ...<br>
<br>
[Driver_init] Must set runtime parameters iProcs, jProcs, kProcs, and meshCopyCount so that iProcs*jProcs*kProcs*meshCopyC<wbr>ount equals number of processors<br>
Calling MPI_Abort() for immediate shutdown!<br>
<br>
Thank you for your help,<br>
<br>
Peter Woitke<br>
<br>
<br>
------------------------------<wbr>----------------------------<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex; border-left:1px #ccc solid; padding-left:1ex">
cd ~/software/hdf5-1.10.1<br>
setenv CC mpicc<br>
setenv CXX mpicxx<br>
setenv FC mpif90<br>
./configure --help<br>
./configure --prefix=/home/star/pw31/softw<wbr>are/hdf5<br>
</blockquote>
--enable-fortran --enable-parallel<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex; border-left:1px #ccc solid; padding-left:1ex">
make<br>
make check<br>
make install<br>
make check-install<br>
</blockquote>
add /home/star/pw31/software/hdf5/<wbr>lib to LD_LIBRARY_PATH ------------------------------<wbr>----------------------------<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex; border-left:1px #ccc solid; padding-left:1ex">
cd ~/flash4.4/sites<br>
mkdir prodimo<br>
cp Prototypes/Linux/<a href="http://Makefile.h.in" target="_blank">Makefile.h.in</a><wbr>tel prodimo/Makefile.h<br>
cd prodimo<br>
emacs Makefile.h ...<br>
cd ~/flash4.4<br>
./setup -auto Sedov cd object<br>
make<br>
</blockquote>
SUCCESS<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex; border-left:1px #ccc solid; padding-left:1ex">
mkdir ../runSedov<br>
cd ../runSedov<br>
cp ../source/Simulation/Simulatio<wbr>nMain/SedovChamber/flash.par .<br>
mpirun -np 7 ../object/flash4<br>
</blockquote>
------------------------------<wbr>----------------------------<br>
<br>
<br>
<br>
Dr. Peter Woitke<br>
St Andrews University<br>
School of Physics & Astronomy<br>
top floor, room 306<br>
North Haugh<br>
KY16 9SS<br>
St Andrews, UK<br>
Tel: <a href="tel:%28%2B44%29%201334%2046%201681" value="+441334461681" target="_blank">
(+44) 1334 46 1681</a><br>
Fax: <a href="tel:%28%2B44%29%201334%2046%203104" value="+441334463104" target="_blank">
(+44) 1334 46 3104</a><br>
<br>
</blockquote>
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<span style="font-size:12.8px">Mark Richardson</span><br style="font-size:12.8px">
<div style="font-size:small"><span style="font-size:12.8px">MAT Postdoctoral Fellow</span>
<div style="font-size:12.8px">Department of Astrophysics</div>
<div><span style="font-size:12.8px">American Museum of Natural History</span>
<div style="font-size:12.8px"><a href="mailto:Mark.Richardson.Work@gmail.com" target="_blank" style="color:rgb(17,85,204)">Mark.Richardson.Work@gmail.com</a></div>
<div><a href="https://sites.google.com/site/marklarichardson/" target="_blank" style="color:rgb(17,85,204)">My Website</a><br>
<div style="font-size:12.8px"><a href="tel:(212)%20496-3432" value="+12124963432" target="_blank">212 496 3432</a></div>
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