Hi,<div>I am a newbie to Flash and I am trying to get FLASH code running (any simulation problem is good).</div><div>I have install MPICH2, HDF5-1.8.4 (with default api version = v1.6 and enable parallel). I did successfully make the executable file flash3 appear.</div>
<div>However, when I run it, then it has error detected. The weird thing is I tried with Sedov, Sod, Pancake problem and all of them have similar error messages.</div><div>For more details, here is what I did:</div><div>
<br>
</div><div><span style="font-family: Verdana; font-size: 13px;"><div style="margin-top: 0px; margin-bottom: 0px;">./setup Sedov -auto</div><div style="margin-top: 0px; margin-bottom: 0px;">cd object</div>
<div style="margin-top: 0px; margin-bottom: 0px;">gmake</div><div style="margin-top: 0px; margin-bottom: 0px;">cp ../source/Simulation/SimulationMain/Sedov/flash.par ./</div><div style="margin-top: 0px; margin-bottom: 0px;">
./flash3</div><div style="margin-top: 0px; margin-bottom: 0px;"><br></div><div style="margin-top: 0px; margin-bottom: 0px;">===></div><div style="margin-top: 0px; margin-bottom: 0px;"><some initial computation result here></div>
<div style="margin-top: 0px; margin-bottom: 0px;"><div style="margin-top: 0px; margin-bottom: 0px;">MaterialProperties initialized</div><div style="margin-top: 0px; margin-bottom: 0px;"> Cosmology initialized</div><div style="margin-top: 0px; margin-bottom: 0px;">
Source terms initialized</div><div style="margin-top: 0px; margin-bottom: 0px;"> iteration, no. not moved = 0 0</div><div style="margin-top: 0px; margin-bottom: 0px;"> refined: total leaf blocks = 1</div>
<div style="margin-top: 0px; margin-bottom: 0px;"> refined: total blocks = 1</div><div style="margin-top: 0px; margin-bottom: 0px;">......</div><div style="margin-top: 0px; margin-bottom: 0px;"><div style="margin-top: 0px; margin-bottom: 0px;">
Gravity initialized</div><div style="margin-top: 0px; margin-bottom: 0px;"> Initial dt verified</div><div style="margin-top: 0px; margin-bottom: 0px;">HDF5-DIAG: Error detected in HDF5 library version: 1.6.4 MPI-process 0. Back trace follows.</div>
<div style="margin-top: 0px; margin-bottom: 0px;"> #000: H5D.c line 1145 in H5Dopen(): not found</div><div style="margin-top: 0px; margin-bottom: 0px;"> major(15): Dataset interface</div><div style="margin-top: 0px; margin-bottom: 0px;">
minor(48): Object not found</div><div style="margin-top: 0px; margin-bottom: 0px;"> #001: H5G.c line 2334 in H5G_find(): object not found</div><div style="margin-top: 0px; margin-bottom: 0px;"> major(10): Symbol table layer</div>
<div style="margin-top: 0px; margin-bottom: 0px;"> minor(48): Object not found</div><div style="margin-top: 0px; margin-bottom: 0px;"> #002: H5G.c line 1531 in H5G_namei(): component not found</div><div style="margin-top: 0px; margin-bottom: 0px;">
major(10): Symbol table layer</div><div style="margin-top: 0px; margin-bottom: 0px;"> minor(48): Object not found</div><div style="margin-top: 0px; margin-bottom: 0px;"> #003: H5Gstab.c line 169 in H5G_stab_find(): not found</div>
<div style="margin-top: 0px; margin-bottom: 0px;"> major(10): Symbol table layer</div><div style="margin-top: 0px; margin-bottom: 0px;"> minor(48): Object not found</div><div style="margin-top: 0px; margin-bottom: 0px;">
#004: H5Gnode.c line 984 in H5G_node_found(): not found</div><div style="margin-top: 0px; margin-bottom: 0px;"> major(10): Symbol table layer</div><div style="margin-top: 0px; margin-bottom: 0px;"> minor(48): Object not found</div>
<div style="margin-top: 0px; margin-bottom: 0px;">Driver_abortC called</div><div style="margin-top: 0px; margin-bottom: 0px;">Error: H5Dopen io_h5write_lrefine</div><br><div style="margin-top: 0px; margin-bottom: 0px;">
Calling MPI_Abort for immediate shutdown</div><div style="margin-top: 0px; margin-bottom: 0px;">[0] MPI Abort by user Aborting program !</div><div style="margin-top: 0px; margin-bottom: 0px;">[0] Aborting program!</div>
<div style="margin-top: 0px; margin-bottom: 0px;">p0_20283: p4_error: : 1</div><div><br></div><div>=============================================</div><div><br></div><div>I tried it again with Sod and Pancake:</div><div>
<br></div><div><div style="margin-top: 0px; margin-bottom: 0px;">./setup Sod -auto</div><div style="margin-top: 0px; margin-bottom: 0px;">cd object</div><div style="margin-top: 0px; margin-bottom: 0px;">gmake</div><div style="margin-top: 0px; margin-bottom: 0px;">
cp ../source/Simulation/SimulationMain/Sod/flash.par ./<br></div><div style="margin-top: 0px; margin-bottom: 0px;">./flash3</div><div style="margin-top: 0px; margin-bottom: 0px;">----------> Here's what I got:</div>
<div style="margin-top: 0px; margin-bottom: 0px;"><br></div><div style="margin-top: 0px; margin-bottom: 0px;"><div style="margin-top: 0px; margin-bottom: 0px;">MaterialProperties initialized</div><div style="margin-top: 0px; margin-bottom: 0px;">
Cosmology initialized</div><div style="margin-top: 0px; margin-bottom: 0px;"> Source terms initialized</div><div style="margin-top: 0px; margin-bottom: 0px;"> iteration, no. not moved = 0 0</div><div style="margin-top: 0px; margin-bottom: 0px;">
refined: total leaf blocks = 1</div><div style="margin-top: 0px; margin-bottom: 0px;"> refined: total blocks = 1</div><div style="margin-top: 0px; margin-bottom: 0px;">.................</div><div style="margin-top: 0px; margin-bottom: 0px;">
<br></div></div><div style="margin-top: 0px; margin-bottom: 0px;"><div style="margin-top: 0px; margin-bottom: 0px;">Gravity initialized</div><div style="margin-top: 0px; margin-bottom: 0px;"> Initial dt verified</div><div style="margin-top: 0px; margin-bottom: 0px;">
HDF5-DIAG: Error detected in HDF5 (1.8.4-patch1) MPI-process 0:</div><div style="margin-top: 0px; margin-bottom: 0px;"> #000: H5Ddeprec.c line 232 in H5Dopen1(): not found</div><div style="margin-top: 0px; margin-bottom: 0px;">
major: Dataset</div><div style="margin-top: 0px; margin-bottom: 0px;"> minor: Object not found</div><div style="margin-top: 0px; margin-bottom: 0px;"> #001: H5Gloc.c line 468 in H5G_loc_find(): can't find object</div>
<div style="margin-top: 0px; margin-bottom: 0px;"> major: Symbol table</div><div style="margin-top: 0px; margin-bottom: 0px;"> minor: Object not found</div><div style="margin-top: 0px; margin-bottom: 0px;"> #002: H5Gtraverse.c line 877 in H5G_traverse(): internal path traversal failed</div>
<div style="margin-top: 0px; margin-bottom: 0px;"> major: Symbol table</div><div style="margin-top: 0px; margin-bottom: 0px;"> minor: Object not found</div><div style="margin-top: 0px; margin-bottom: 0px;"> #003: H5Gtraverse.c line 703 in H5G_traverse_real(): traversal operator failed</div>
<div style="margin-top: 0px; margin-bottom: 0px;"> major: Symbol table</div><div style="margin-top: 0px; margin-bottom: 0px;"> minor: Callback failed</div><div style="margin-top: 0px; margin-bottom: 0px;"> #004: H5Gloc.c line 423 in H5G_loc_find_cb(): object doesn't exist</div>
<div style="margin-top: 0px; margin-bottom: 0px;"> major: Symbol table</div><div style="margin-top: 0px; margin-bottom: 0px;"> minor: Object not found</div><div style="margin-top: 0px; margin-bottom: 0px;">Driver_abortC called</div>
<div style="margin-top: 0px; margin-bottom: 0px;">Error: H5Dopen io_h5write_lrefine</div><br><div style="margin-top: 0px; margin-bottom: 0px;">Calling MPI_Abort for immediate shutdown</div><div style="margin-top: 0px; margin-bottom: 0px;">
application called MPI_Abort(MPI_COMM_WORLD, 1) - process 0</div><div><br></div><div><br></div><div>Everything starts to get wrong after Gravity initialized and Initial dt verified. </div><div><br></div><div>I don't know what's wrong with my compilation/configuration. Could anyone give me some advices?</div>
<div><br></div><div>I attach here my Makefile.h.</div><div><br></div><div>Thanks in advance</div><div>Huong Luu</div><div><br></div></div></div></div><div style="margin-top: 0px; margin-bottom: 0px;"><br></div></div></span></div>