> Sounds really interesting - the one reservation I'd have, however, is that > HDF5 doesn't appear to be open-source.
just to note that HDF5 is open source. License available here: ftp://ftp.hdfgroup.org/HDF5/current/src/unpacked/COPYING Andre. > > Cheers, > James > > Jon Olav Vik wrote: >> >> Dear all, >> >> I'm considering HDF5 for my storage needs in simulating a CellML model >> under multiple parameter scenarios. HDF5 is designed for efficient storage, >> retrieval, navigation and subsetting of huge data sets [1], with annotation >> [2]. I plan on storing both raw and post-processed data, so that if I detect >> problems at a higher level, I can go back and look at details and possibly >> re- >> run those simulations. David Nickerson described a similar approach in an >> earlier post [3]. >> >> However, setting up the data structure with annotations for physical units >> and such is quite time-consuming. On the other hand, the CellML >> representation holds all the required information. It would be very helpful >> to auto-generate an HDF5 data structure to hold output from simulations of >> CellML models. >> >> Such a tool should be fairly easy to write for someone familiar with both >> HDF5 and CellML, and would apply to all possible CellML models. I guess it >> would be overly restrictive to make an output format part of the CellML >> metadata specification. However, offering a standard output format would >> save duplication of effort and make it easier to share simulation results >> for further visualization and analysis. >> >> I'd like the opinions of the CellML regulars, in particular whether >> anything similar has been discussed previously. >> >> Best regards, >> Jon Olav Vik >> >> [1] http://www.hdfgroup.org/about/hdf_technologies.html >> [2] >> http://www.hdfgroup.org/training/HDFtraining/UsersGuide/MF_Annot.fm1.html >> [3] http://article.gmane.org/gmane.text.xml.cellml.general/234/match=hdf5 >> >> >> _______________________________________________ >> cellml-discussion mailing list >> [email protected] >> http://www.cellml.org/mailman/listinfo/cellml-discussion >> > > > _______________________________________________ > cellml-discussion mailing list > [email protected] > http://www.cellml.org/mailman/listinfo/cellml-discussion > > _______________________________________________ cellml-discussion mailing list [email protected] http://www.cellml.org/mailman/listinfo/cellml-discussion
