Hello Barbara, I have tried the development snapshot you provided. It works well and this solves my issue. Thanks for fixing this bug!
Can you tell us when a new version of HDF5 with this fix included will be released? Xavier On Mon, Oct 29, 2012 at 5:29 PM, Barbara Jones <[email protected]> wrote: > > > Hello Greg and Xavier, > > We created a development snapshot with a fix for the h5diff > performance issue that you reported (described by Elena below). > > You can get to the snapshot from either The HDF Group Downloads > page, > http://www.hdfgroup.org/downloads/ > > or directly from here: > http://www.hdfgroup.uiuc.edu/ftp/pub/outgoing/hdf5/snapshots/v18/ > > Scroll down and you will find the "hdf5-1.8.11-snap0" snapshot files > containing the fix: > > - hdf5-1.8.11-snap0-RELEASE.txt > - hdf5-1.8.11-snap0.tar.bz2 > - hdf5-1.8.11-snap0.tar.gz > - hdf5-1.8.11-snap0.tar.md5 > - hdf5-1.8.11-snap0_docs.tar > > Please let us know whether or not this resolves the issue for > you. > > Thanks! > -Barbara > [email protected] > > > On Thu, 18 Oct 2012, Elena Pourmal wrote: > > > Hello, > > > > I would like to give a status update on the h5diff slowness issue. > > > > Background: 1.8.6 and earlier versions of h5diff had a bug in the > attributes comparison. In some cases attributes were not compared at all > ;-) When the bug was removed in 1.8.7, a performance issue in HDF5 was > exposed. The performance deficiencies in the h5diff code were also not > ruled out. > > > > We are actively working on the problem, but unfortunately will not be > able to provide a fix in the upcoming 1.8.10 release. We will inform the > FORUM as soon as the root(s) of the problem and the possible solutions > are identified. > > > > Thank you! > > > > Elena > > > > ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > > Elena Pourmal The HDF Group http://hdfgroup.org > > 1800 So. Oak St., Suite 203, Champaign IL 61820 > > 217.531.6112 > > ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > > > > > > > > On Oct 16, 2012, at 3:44 PM, Jonathan Kim wrote: > > > >> Hi Gregory, > >> > >> We've identified the issue and put it in the bug tracking system. > >> We will look into the issue. > >> > >> If it's possible to send us your HDF5 file, we'd appreciate. > >> > >> Thanks for your input! > >> > >> Jonathan > >> > >> On 10/16/2012 12:50 PM, Gregory Sjaardema wrote: > >>> We are also seeing this slowdown. I did a little looking and some of > the issue seems to be in H5O_attr_find_opened_attr. There is a call to > "num_open_attr = H5F_get_obj_count(loc->file, H5F_OBJ_ATTR | H5F_OBJ_LOCAL, > FALSE);" > >>> > >>> On hdf5 >= 1.8.7, the num_open_attr count keeps increasing on each > call. For one particular problem I am running, it returns 21153 at the end > of execution. However, in hdf5 < 1.8.7, the num_open_attr is always 0. > >>> > >>> Hope this helps track down the issue; h5diff is unusable for us at the > current time. > >>> > >>> --Greg > >>> > >>> > >>> _______________________________________________ > >>> Hdf-forum is for HDF software users discussion. > >>> [email protected] > >>> http://mail.hdfgroup.org/mailman/listinfo/hdf-forum_hdfgroup.org > >> > >> _______________________________________________ > >> Hdf-forum is for HDF software users discussion. > >> [email protected] > >> http://mail.hdfgroup.org/mailman/listinfo/hdf-forum_hdfgroup.org > > > > > > -- > Barbara L. Jones > [email protected] > >
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