1. 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
  2. 15 Feb, 2013 1 commit
  3. 12 Feb, 2013 2 commits
  4. 08 Feb, 2013 1 commit
  5. 04 Feb, 2013 1 commit
  6. 30 Jan, 2013 1 commit
  7. 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
  8. 29 Nov, 2012 1 commit
  9. 17 Aug, 2012 1 commit
  10. 15 Aug, 2012 1 commit
  11. 02 Jul, 2012 1 commit
  12. 22 Jun, 2012 1 commit
  13. 05 Jun, 2012 1 commit
  14. 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
  15. 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
  16. 27 Apr, 2012 2 commits
  17. 24 Apr, 2012 1 commit
  18. 23 Apr, 2012 1 commit
    • Kenneth Leiter's avatar
      ENH: Simplify XdmfArray class. · 3eb2d342
      Kenneth Leiter authored
      Slightly improves compile time on gcc.
      Get rid of mHaveArray and mHaveArrayPointer - rely on blank in variant.
      This reduces code and makes logic easier to understand.
      3eb2d342
  19. 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
  20. 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
  21. 29 Mar, 2012 2 commits
  22. 08 Mar, 2012 1 commit
  23. 02 Mar, 2012 1 commit
  24. 13 Feb, 2012 1 commit
  25. 18 Jan, 2012 3 commits
  26. 11 Jan, 2012 1 commit
  27. 08 Dec, 2011 1 commit
  28. 02 Dec, 2011 1 commit
    • Brian Panneton's avatar
      BUG: Fixed resolving file names with protocol added · 294c383c
      Brian Panneton authored
      The bug appears when trying to use a filename given as:
      file:///path/to/xmf/file.xmf and the xmf contains a reference to an h5 file.
      
      - When writing you will end up with a file called 'file:' which contains
      random data.
      - When reading, libxml2 has no problem opening the xml file however
      getRealPath() returns the wrong path for the h5 file. If you try to
      use file.xmf from the to directory (ie: read("to/xmf/file.xmf")) the
      h5 file will be loaded from 'to/file.h5'.
      
      To correct the issue, we strip out the unwanted scheme and other stuff
      in the URI and just use the path. (libxml has functions for this)
      294c383c
  29. 01 Dec, 2011 1 commit
    • Kenneth Leiter's avatar
      BUG: Fix bug when pulling in href'd xincludes. · 4fe61475
      Kenneth Leiter authored
      Additional xmf files are now read in via href'd xincludes which broke
      mapping of xmlNodePtrs to XdmfItems (which qas necessary to enable shared
      pointer representation in file).  This mapping was fixed.
      4fe61475
  30. 30 Nov, 2011 1 commit
    • Kenneth Leiter's avatar
      BUG: Fix infinite loop in XdmfCoreReader.cpp · d11ee071
      Kenneth Leiter authored
      XdmfCoreReader.cpp had a bug that resulted in an infinite loop when
      resolving xincludes. This bug was fixed. Added ability for xincludes
      to resolve href links (links to other files).
      
      Fixed formatting in XdmfWriter.cpp
      d11ee071
  31. 28 Nov, 2011 2 commits
  32. 23 Nov, 2011 1 commit
  33. 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
  34. 29 Sep, 2011 1 commit