1. 22 Apr, 2013 1 commit
    • Kenneth Leiter's avatar
      BUG: Fix off by one error when partitioning graph on one processor. · 4f7ac2f6
      Kenneth Leiter authored
      For some reason metis gets this wrong - when "partitioning" graph onto one
      processor metis returns all ones instead of zeros despite having the correct
      METIS_OPTION_NUMBERING. We now check explicitly for the case of partitioning
      on one processor and handle it ourselves instead of relying on metis.
      4f7ac2f6
  2. 10 Apr, 2013 1 commit
  3. 26 Mar, 2013 2 commits
    • Kenneth Leiter's avatar
      26bed716
    • Kenneth Leiter's avatar
      BUG: Fix XdmfTopologyConverter to perform node insertion solely · 76a9b916
      Kenneth Leiter authored
      based on connectivity.
      
      Previously, nodes added to a mesh in XdmfTopologyConverter were
      compared using position to ensure nodes added to element boundaries
      were not duplicated (added more than once). This failed in some
      cases, especially for highly refined meshes, because of incorrect
      floating point comparisons. Now, shared nodes are identified using
      connectivity, ensuring that nodal addition should work in all cases,
      even for highly refined meshes.
      76a9b916
  4. 07 Mar, 2013 1 commit
    • Kenneth Leiter's avatar
      ENH: Add graphs to Xdmf. · d51c5f3e
      Kenneth Leiter authored
      Graphs are stored in compressed sparse row format (XdmfSparseMatrix).
      Added ability to partition graphs in XdmfPartitioner.
      Added tests for new sparse matrix and graph classes.
      d51c5f3e
  5. 04 Feb, 2013 1 commit
  6. 04 Dec, 2012 1 commit
    • Kenneth Leiter's avatar
      ENH: Add string array type · c5929b52
      Kenneth Leiter authored
      Add tests for I/O of strings (to hdf5 and xml).
      Fix bug in XdmfExodusReader when reading grid centered data.
      Add string I/O in python and add tests.
      c5929b52
  7. 17 Aug, 2012 1 commit
  8. 15 Aug, 2012 1 commit
  9. 22 Jun, 2012 1 commit
  10. 25 May, 2012 1 commit
    • Kenneth Leiter's avatar
      ENH: Add methods in Fortran interface to reuse previously added data. · 895f33c5
      Kenneth Leiter authored
      Output of Xdmf data in Fortran can now take advantage of xpointer functionality.
      Calling any AddPrevious or SetPrevious methods will reuse previously
      added Xdmf structure so that when it is written to disk xincludes can be
      utilized rather than rewriting identical structure multiple times.  These
      methods take an id which is returned in Add or Set calls.
      
      Modified TestXdmfFortran.f90 to utilize new functionality.
      895f33c5
  11. 14 May, 2012 1 commit
    • Kenneth Leiter's avatar
      ENH: Performance improvements for large reads/writes · 7bcbfe72
      Kenneth Leiter authored
      Eliminate getRealPath calls which are expensive and not necessary in many cases
      Parse XML node content only when necessary (parsing arrays)
      Fix cases where copies were made of strings instead of using references
      Use "map.insert()" rather than "map[] =" when adding properties to map
      7bcbfe72
  12. 27 Apr, 2012 2 commits
  13. 24 Apr, 2012 1 commit
  14. 20 Apr, 2012 1 commit
    • Kenneth Leiter's avatar
      ENH: Performance improvements for HDF5 writer. · d5ebbc9f
      Kenneth Leiter authored
      Choose dataset name more carefully to avoid querying the file many times.
      Use a more efficient function to check if a dataset already exists in a file.
      Get DSM working with new changes.
      Fix gcc compiler warning in test.
      d5ebbc9f
  15. 19 Apr, 2012 1 commit
    • Kenneth Leiter's avatar
      ENH: Improve performance of hdf5 writes. · decc7dd4
      Kenneth Leiter authored
      Previously, each time a dataset was written to hdf5, the file was opened
      and closed. This was implemented because inside the heavy data writer
      we have no idea whether another dataset will be written, so we don't know
      whether to keep the file open. After profiling large xdmf writes it was
      determined that closing the file appeared to be a bottleneck so hooks were
      added to the heavy data writer to open the file and keep it open while writing.
      This is optional, but was incorporated into several higher level classes
      like XdmfWriter where we know we can leave a file open until we finish writing
      the XML. For our test problem we saw a 7 time performance gain.
      decc7dd4
  16. 29 Mar, 2012 2 commits
  17. 08 Mar, 2012 1 commit
  18. 02 Mar, 2012 1 commit
  19. 28 Nov, 2011 1 commit
    • Kenneth Leiter's avatar
      ENH: Add unpartition method to partitioner. · f73576ec
      Kenneth Leiter authored
      Unpartition method takes an XdmfGridCollection of unstructured grids
      and zips them back together into a single XdmfUnstructuredGrid. It uses
      GlobalNodeIds to perform the unpartitioning.
      
      Also added some functionality to the partitioner so that it will properly
      partition set attributes of types other than scalar.
      f73576ec
  20. 22 Nov, 2011 1 commit
    • Kenneth Leiter's avatar
      ENH: Allow arbitrary elements to be partitioned by metis. · 86eefce2
      Kenneth Leiter authored
      The new version of metis uses a different format to supply connectivity
      information to the partitioning algorithm. The new format allows generic
      element types to be passed (as well as mixed topology formats). These changes
      expand the number of element types we can partition in metis (this was tested
      on high-order hexahedron, linear hexahedron, and polyline topologies)
      86eefce2
  21. 29 Sep, 2011 2 commits
  22. 23 Aug, 2011 1 commit
  23. 11 Aug, 2011 1 commit
  24. 10 Aug, 2011 1 commit
  25. 08 Aug, 2011 1 commit
  26. 03 Aug, 2011 1 commit
  27. 26 Jul, 2011 1 commit
  28. 20 Jul, 2011 1 commit
  29. 15 Jul, 2011 1 commit
  30. 13 Jul, 2011 1 commit
  31. 12 Jul, 2011 1 commit
  32. 06 Jun, 2011 1 commit
  33. 19 May, 2011 1 commit
  34. 18 May, 2011 3 commits