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<div class="">Hello,</div>
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</div>
<div class="">I apologise for this overflow of information, I know something more, this error is triggered on 0 proc, when I have a variable tag on vertices and edges. </div>
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<div class=""> 0 H5M (0.03 s) Reading tag "_App_Datax"<br class="">
0 H5M *********** Debug Barrier 51 (@2706)***********<br class="">
1 H5M (0.03 s) Reading tag "_App_Datax"<br class="">
1 H5M *********** Debug Barrier 51 (@2706)***********<br class="">
0 H5M Reading var-len sparse data for tag "_App_Datax"<br class="">
1 H5M Reading var-len sparse data for tag "_App_Datax"<br class="">
0 H5M Reading file ids for sparse tag "_App_Datax" in 1 chunks<br class="">
0 H5M Reading chunk 1 of "_App_Datax" IDs<br class="">
1 H5M Reading file ids for sparse tag "_App_Datax" in 1 chunks<br class="">
1 H5M Reading chunk 1 of "_App_Datax" IDs<br class="">
1 H5M Switching to unordered list for tag handle list<br class="">
[1]MOAB ERROR: --------------------- Error Message ------------------------------------<br class="">
[1]MOAB ERROR: Unordered file ids for variable length tag not supported!<br class="">
[1]MOAB ERROR: read_var_len_tag() line 3335 in src/io/ReadHDF5.cpp<br class="">
[1]MOAB ERROR: --------------------- Error Message ------------------------------------<br class="">
[1]MOAB ERROR: ReadHDF5 Failure!<br class="">
[1]MOAB ERROR: read_tag() line 2769 in src/io/ReadHDF5.cpp<br class="">
[1]MOAB ERROR: --------------------- Error Message ------------------------------------<br class="">
[1]MOAB ERROR: ReadHDF5 Failure!<br class="">
[1]MOAB ERROR: load_file_partial() line 1164 in src/io/ReadHDF5.cpp<br class="">
1 H5M (0.04 s) Cleaning up<br class="">
<br class="">
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<div class="">In particular note, that proc 1 is ok, the problem is on proc 0. Mesh is partitioned with metis and entities are on both processors for both dimensions.</div>
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</div>
<div class="">I reading fike with options:</div>
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</div>
<div class=""> option = "PARALLEL=READ_PART;"<br class="">
"PARALLEL_RESOLVE_SHARED_ENTS;"<br class="">
"PARTITION=PARALLEL_PARTITION;DEBUG_IO=5";</div>
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</div>
<div class=""><br class="">
</div>
<div class="">Is this something wrong on my side, or rather need to be fixed in moab reader. I can have a go, but need to have some hint how to fix this.</div>
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<div class="">Lukasz</div>
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</div>
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<blockquote type="cite" class="">
<div class="">On 4 Dec 2018, at 00:27, Lukasz Kaczmarczyk via moab-dev <<a href="mailto:moab-dev@mcs.anl.gov" class="">moab-dev@mcs.anl.gov</a>> wrote:</div>
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<div class="">Hello,</div>
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</div>
If that will help, this is debugging IO trace,
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</div>
<div class="">
<div class="">H5M (0.02 s) Reading all nodes...</div>
<div class="">H5M Reading 0 chunks for coordinate coordinates</div>
<div class="">H5M (0.02 s) Reading chunk 1 of node coords</div>
<div class="">H5M Closing node coordinate table</div>
<div class="">H5M Updating ID to handle map for 59 nodes</div>
<div class="">H5M (0.02 s) Reading all element connectivity...</div>
<div class="">H5M (0.02 s) READING Edge2 CONNECTIVITY (236 elems in 1 selects)</div>
<div class="">H5M Reading connectivity in 0 chunks for element group "Edge2"</div>
<div class="">H5M Reading chunk 1 for "Edge2"</div>
<div class="">H5M (0.02 s) READING Tet4 CONNECTIVITY (132 elems in 1 selects)</div>
<div class="">H5M Reading connectivity in 0 chunks for element group "Tet4"</div>
<div class="">H5M Reading chunk 1 for "Tet4"</div>
<div class="">H5M (0.02 s) READING Tri3 CONNECTIVITY (310 elems in 1 selects)</div>
<div class="">H5M Reading connectivity in 0 chunks for element group "Tri3"</div>
<div class="">H5M Reading chunk 1 for "Tri3"</div>
<div class="">H5M (0.02 s) Reading all sets...</div>
<div class="">H5M Reading chunk 1 of set contents</div>
<div class="">H5M Reading chunk 1 of set children</div>
<div class="">H5M Reading chunk 1 of set parents</div>
<div class="">H5M (0.02 s) Reading all adjacencies...</div>
<div class="">H5M Reading adjacency list in 1 chunks</div>
<div class="">H5M Reading chunk 1 of adjacency list</div>
<div class="">H5M Reading adjacency list in 1 chunks</div>
<div class="">H5M Reading chunk 1 of adjacency list</div>
<div class="">H5M Reading adjacency list in 1 chunks</div>
<div class="">H5M Reading chunk 1 of adjacency list</div>
<div class="">H5M (0.03 s) Reading all tags...</div>
<div class="">H5M (0.03 s) Reading tag "BLOCK_ATTRIBUTES"</div>
<div class="">H5M Reading var-len sparse data for tag "BLOCK_ATTRIBUTES"</div>
<div class="">H5M Reading file ids for sparse tag "BLOCK_ATTRIBUTES" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "BLOCK_ATTRIBUTES" IDs</div>
<div class="">H5M Reading BLOCK_ATTRIBUTES offsets in 0 chunks</div>
<div class="">H5M Reading chunk 1 of BLOCK_ATTRIBUTES offsets</div>
<div class="">H5M Reading BLOCK_ATTRIBUTES values in 0 chunks</div>
<div class="">H5M Reading chunk 1 of BLOCK_ATTRIBUTES values</div>
<div class="">H5M (0.03 s) Reading tag "BLOCK_HEADER"</div>
<div class="">H5M Reading sparse data for tag "BLOCK_HEADER"</div>
<div class="">H5M Reading file ids for sparse tag "BLOCK_HEADER" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "BLOCK_HEADER" IDs</div>
<div class="">H5M Reading sparse values for tag "BLOCK_HEADER" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "BLOCK_HEADER" values</div>
<div class="">H5M (0.03 s) Reading tag "BOX_DIMS"</div>
<div class="">H5M (0.03 s) Reading tag "CATEGORY"</div>
<div class="">H5M Reading sparse data for tag "CATEGORY"</div>
<div class="">H5M Reading file ids for sparse tag "CATEGORY" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "CATEGORY" IDs</div>
<div class="">H5M Reading sparse values for tag "CATEGORY" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "CATEGORY" values</div>
<div class="">H5M (0.03 s) Reading tag "DIRICHLET_SET"</div>
<div class="">H5M (0.03 s) Reading tag "DIRICHLET_SET__BC_DATA"</div>
<div class="">H5M (0.03 s) Reading tag "ElemType"</div>
<div class="">H5M (0.03 s) Reading tag "GEOM_DIMENSION"</div>
<div class="">H5M Reading sparse data for tag "GEOM_DIMENSION"</div>
<div class="">H5M Reading file ids for sparse tag "GEOM_DIMENSION" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "GEOM_DIMENSION" IDs</div>
<div class="">H5M Reading sparse values for tag "GEOM_DIMENSION" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "GEOM_DIMENSION" values</div>
<div class="">H5M (0.03 s) Reading tag "GEOM_SENSE_2"</div>
<div class="">H5M Reading sparse data for tag "GEOM_SENSE_2"</div>
<div class="">H5M Reading file ids for sparse tag "GEOM_SENSE_2" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "GEOM_SENSE_2" IDs</div>
<div class="">H5M Reading sparse values for tag "GEOM_SENSE_2" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "GEOM_SENSE_2" values</div>
<div class="">H5M (0.03 s) Reading tag "GEOM_SENSE_N_ENTS"</div>
<div class="">H5M Reading var-len sparse data for tag "GEOM_SENSE_N_ENTS"</div>
<div class="">H5M Reading file ids for sparse tag "GEOM_SENSE_N_ENTS" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "GEOM_SENSE_N_ENTS" IDs</div>
<div class="">H5M Reading GEOM_SENSE_N_ENTS offsets in 0 chunks</div>
<div class="">H5M Reading chunk 1 of GEOM_SENSE_N_ENTS offsets</div>
<div class="">H5M Reading GEOM_SENSE_N_ENTS values in 0 chunks</div>
<div class="">H5M Reading chunk 1 of GEOM_SENSE_N_ENTS values</div>
<div class="">H5M (0.03 s) Reading tag "GEOM_SENSE_N_SENSES"</div>
<div class="">H5M Reading var-len sparse data for tag "GEOM_SENSE_N_SENSES"</div>
<div class="">H5M Reading file ids for sparse tag "GEOM_SENSE_N_SENSES" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "GEOM_SENSE_N_SENSES" IDs</div>
<div class="">H5M Reading GEOM_SENSE_N_SENSES offsets in 0 chunks</div>
<div class="">H5M Reading chunk 1 of GEOM_SENSE_N_SENSES offsets</div>
<div class="">H5M Reading GEOM_SENSE_N_SENSES values in 0 chunks</div>
<div class="">H5M Reading chunk 1 of GEOM_SENSE_N_SENSES values</div>
<div class="">H5M (0.03 s) Reading tag "GLOBAL_ID"</div>
<div class="">H5M Read dense data block for tag "GLOBAL_ID" on "sets"</div>
<div class="">H5M Reading dense data for tag "GLOBAL_ID data for sets" and group "sets" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "GLOBAL_ID data for sets" data</div>
<div class="">H5M Read dense data block for tag "GLOBAL_ID" on "nodes"</div>
<div class="">H5M Reading dense data for tag "GLOBAL_ID data for nodes" and group "nodes" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "GLOBAL_ID data for nodes" data</div>
<div class="">H5M Read dense data block for tag "GLOBAL_ID" on "Edge2"</div>
<div class="">H5M Reading dense data for tag "GLOBAL_ID data for Edge2" and group "Edge2" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "GLOBAL_ID data for Edge2" data</div>
<div class="">H5M Read dense data block for tag "GLOBAL_ID" on "Tet4"</div>
<div class="">H5M Reading dense data for tag "GLOBAL_ID data for Tet4" and group "Tet4" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "GLOBAL_ID data for Tet4" data</div>
<div class="">H5M Read dense data block for tag "GLOBAL_ID" on "Tri3"</div>
<div class="">H5M Reading dense data for tag "GLOBAL_ID data for Tri3" and group "Tri3" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "GLOBAL_ID data for Tri3" data</div>
<div class="">H5M (0.03 s) Reading tag "MATERIAL_SET"</div>
<div class="">H5M Reading sparse data for tag "MATERIAL_SET"</div>
<div class="">H5M Reading file ids for sparse tag "MATERIAL_SET" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "MATERIAL_SET" IDs</div>
<div class="">H5M Reading sparse values for tag "MATERIAL_SET" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "MATERIAL_SET" values</div>
<div class="">H5M (0.03 s) Reading tag "MOFEM_VERSION"</div>
<div class="">H5M (0.03 s) Reading tag "NAME"</div>
<div class="">H5M Reading sparse data for tag "NAME"</div>
<div class="">H5M Reading file ids for sparse tag "NAME" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "NAME" IDs</div>
<div class="">H5M Reading sparse values for tag "NAME" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "NAME" values</div>
<div class="">H5M (0.03 s) Reading tag "NEUMANN_SET"</div>
<div class="">H5M (0.03 s) Reading tag "NEUMANN_SET__BC_DATA"</div>
<div class="">H5M (0.03 s) Reading tag "OBB"</div>
<div class="">H5M (0.03 s) Reading tag "PARALLEL_PARTITION"</div>
<div class="">H5M Reading sparse data for tag "PARALLEL_PARTITION"</div>
<div class="">H5M Reading file ids for sparse tag "PARALLEL_PARTITION" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "PARALLEL_PARTITION" IDs</div>
<div class="">H5M Reading sparse values for tag "PARALLEL_PARTITION" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "PARALLEL_PARTITION" values</div>
<div class="">H5M Read dense data block for tag "PARALLEL_PARTITION" on "Edge2"</div>
<div class="">H5M Reading dense data for tag "PARALLEL_PARTITION data for Edge2" and group "Edge2" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "PARALLEL_PARTITION data for Edge2" data</div>
<div class="">H5M Read dense data block for tag "PARALLEL_PARTITION" on "Tet4"</div>
<div class="">H5M Reading dense data for tag "PARALLEL_PARTITION data for Tet4" and group "Tet4" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "PARALLEL_PARTITION data for Tet4" data</div>
<div class="">H5M Read dense data block for tag "PARALLEL_PARTITION" on "Tri3"</div>
<div class="">H5M Reading dense data for tag "PARALLEL_PARTITION data for Tri3" and group "Tri3" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "PARALLEL_PARTITION data for Tri3" data</div>
<div class="">H5M (0.03 s) Reading tag "PARTITION"</div>
<div class="">H5M (0.03 s) Reading tag "UNIQUE_ID"</div>
<div class="">H5M Reading sparse data for tag "UNIQUE_ID"</div>
<div class="">H5M Reading file ids for sparse tag "UNIQUE_ID" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "UNIQUE_ID" IDs</div>
<div class="">H5M Reading sparse values for tag "UNIQUE_ID" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "UNIQUE_ID" values</div>
<div class="">H5M (0.03 s) Reading tag "_App_DataBUBBLE"</div>
<div class="">H5M Reading var-len sparse data for tag "_App_DataBUBBLE"</div>
<div class="">H5M Reading file ids for sparse tag "_App_DataBUBBLE" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "_App_DataBUBBLE" IDs</div>
<div class="">H5M Reading _App_DataBUBBLE offsets in 0 chunks</div>
<div class="">H5M Reading chunk 1 of _App_DataBUBBLE offsets</div>
<div class="">H5M Reading _App_DataBUBBLE values in 0 chunks</div>
<div class="">H5M Reading chunk 1 of _App_DataBUBBLE values</div>
<div class="">H5M (0.03 s) Reading tag "_App_DataG"</div>
<div class="">H5M Reading var-len sparse data for tag "_App_DataG"</div>
<div class="">H5M Reading file ids for sparse tag "_App_DataG" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "_App_DataG" IDs</div>
<div class="">H5M Reading _App_DataG offsets in 0 chunks</div>
<div class="">H5M Reading chunk 1 of _App_DataG offsets</div>
<div class="">H5M Reading _App_DataG values in 0 chunks</div>
<div class="">H5M Reading chunk 1 of _App_DataG values</div>
<div class="">H5M (0.03 s) Reading tag "_App_DataG0"</div>
<div class="">H5M Reading var-len sparse data for tag "_App_DataG0"</div>
<div class="">H5M Reading file ids for sparse tag "_App_DataG0" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "_App_DataG0" IDs</div>
<div class="">H5M Reading _App_DataG0 offsets in 0 chunks</div>
<div class="">H5M Reading chunk 1 of _App_DataG0 offsets</div>
<div class="">H5M Reading _App_DataG0 values in 0 chunks</div>
<div class="">H5M Reading chunk 1 of _App_DataG0 values</div>
<div class="">H5M (0.03 s) Reading tag "_App_DataP"</div>
<div class="">H5M Reading var-len sparse data for tag "_App_DataP"</div>
<div class="">H5M Reading file ids for sparse tag "_App_DataP" in 0 chunks</div>
<div class="">H5M Reading chunk 1 of "_App_DataP" IDs</div>
<div class="">H5M Switching to unordered list for tag handle list</div>
<div class="">[0]MOAB ERROR: --------------------- Error Message ------------------------------------</div>
<div class="">[0]MOAB ERROR: Unordered file ids for variable length tag not supported!</div>
<div class="">[0]MOAB ERROR: read_var_len_tag() line 3335 in src/io/ReadHDF5.cpp</div>
<div class="">[0]MOAB ERROR: --------------------- Error Message ------------------------------------</div>
<div class="">[0]MOAB ERROR: ReadHDF5 Failure!</div>
<div class="">[0]MOAB ERROR: read_tag() line 2769 in src/io/ReadHDF5.cpp</div>
<div class="">[0]MOAB ERROR: --------------------- Error Message ------------------------------------</div>
<div class="">[0]MOAB ERROR: ReadHDF5 Failure!</div>
<div class="">[0]MOAB ERROR: load_file_impl() line 678 in src/io/ReadHDF5.cpp</div>
<div class="">H5M (0.03 s) Cleaning up</div>
<div class="">H5M (0.03 s) READ FAILED (ERROR CODE MB_FAILURE): ReadHDF5 Failure</div>
<div class="">[0]MOAB ERROR: --------------------- Error Message ------------------------------------</div>
<div class="">[0]MOAB ERROR: Failed to load file after trying all possible readers!</div>
<div class="">[0]MOAB ERROR: serial_load_file() line 623 in src/Core.cpp</div>
<div class="">[0]MOAB ERROR: --------------------- Error Message ------------------------------------</div>
<div class="">[0]MOAB ERROR: Failed in step PARALLEL READ!</div>
<div class="">[0]MOAB ERROR: load_file() line 612 in src/ReadParallel.cpp</div>
<div class="">[0]MOAB ERROR: load_file() line 263 in src/ReadParallel.cpp</div>
<div class="">[0]MOAB ERROR: load_file() line 503 in src/Core.cpp</div>
<div class="">[0]MoFEM ERROR: --------------------- MoFEM Error Message ---------------------------------------------------</div>
<div class="">[0]MoFEM ERROR: MoFEM version 0.8.17 (MOAB 5.0.2 Petsc Release Version 3.9.3, Jul, 02, 2018 )</div>
<div class="">[0]MoFEM ERROR: MoFEM git commit id 9fe99b7e4d55b4d664a369dec823ed6f828cab58</div>
<div class="">[0]MoFEM ERROR: See <a href="http://mofem.eng.gla.ac.uk/mofem/html/guidelines_bug_reporting.html" class="">
http://mofem.eng.gla.ac.uk/mofem/html/guidelines_bug_reporting.html</a> for bug reporting.</div>
<div class="">[0]MoFEM ERROR: Write to <a href="https://groups.google.com/forum/#!forum/mofem-group" class="">
https://groups.google.com/forum/#!forum/mofem-group</a> to seek help.</div>
<div class="">[0]MoFEM ERROR: MOAB error (16) MB_FAILURE</div>
<div class="">[0]MoFEM ERROR: #1 main() line 59 in /Users/likask/MyBuild/mofem-cephas/mofem/users_modules/eshelbian_plasticty/ep.cpp</div>
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<blockquote type="cite" class="">
<div class="">On 3 Dec 2018, at 22:23, Lukasz Kaczmarczyk <<a href="mailto:Lukasz.Kaczmarczyk@glasgow.ac.uk" class="">Lukasz.Kaczmarczyk@glasgow.ac.uk</a>> wrote:</div>
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<div class="">
<div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">
<div class="">This is for partitioning for two processors, and I have variable length tags on vertices, edges, faces and volumes. </div>
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<blockquote type="cite" class="">
<div class="">On 3 Dec 2018, at 22:15, Lukasz Kaczmarczyk via moab-dev <<a href="mailto:moab-dev@mcs.anl.gov" class="">moab-dev@mcs.anl.gov</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div class="">
<div class="BodyFragment"><font size="2" class=""><span style="font-size:10pt;" class="">
<div class="PlainText">Hello,<br class="">
<br class="">
I have this error for parallel when I write, then read in parallel, could you advise how to fix this error,<br class="">
<br class="">
[1]MOAB ERROR: --------------------- Error Message ------------------------------------<br class="">
[1]MOAB ERROR: Unordered file ids for variable length tag not supported!<br class="">
[1]MOAB ERROR: read_var_len_tag() line 3335 in src/io/ReadHDF5.cpp<br class="">
[1]MOAB ERROR: --------------------- Error Message ------------------------------------<br class="">
[1]MOAB ERROR: ReadHDF5 Failure!<br class="">
[1]MOAB ERROR: read_tag() line 2769 in src/io/ReadHDF5.cpp<br class="">
[1]MOAB ERROR: --------------------- Error Message ------------------------------------<br class="">
[1]MOAB ERROR: ReadHDF5 Failure!<br class="">
[1]MOAB ERROR: load_file_partial() line 1164 in src/io/ReadHDF5.cpp<br class="">
<br class="">
</div>
</span></font></div>
<div class="BodyFragment"><font size="2" class=""><span style="font-size:10pt;" class="">
<div class="PlainText"><br class="">
<br class="">
Kind regards,<br class="">
Lukasz<br class="">
<br class="">
</div>
</span></font></div>
</div>
<span id="cid:B761184B0118FC4680BF0547C014746B@campus.gla.ac.uk" class=""><restart_1.h5m></span></div>
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