vchoi_fork

[svn-r1753] Changes since 19991007
----------------------

./configure.in
./src/H5config.h.in	[REGENERATED]
	The /usr/ncsa/{include,lib} directories are only added if they
	actually exist. This fixes a warning on some systems.

	Checks for the <pdb.h> header file and also for either the PDB or Silo
	library, and if found prepares to compile the pdb2hdf program.

./config/distdep
	Relative path names for include files are changed to base names since
	the makefile contains the logic for searching and since it's likely
	that building the .distdep files happed from a location other than
	where they would be used in the file system.

./config/conclude.in
	Fixed shell errors when `for' loops iterate over nothing for the
	`uninstall' target.

./src/H5D.c
./src/H5Oefl.c
	File names for the external files are added to the heap when the
	dataset is created instead of when the object header is written. This
	fixes a rare infinite recursion bug.

./src/H5FD.c
./src/H5FDpublic.h
	Optimization to the free list causes H5FD_alloc() usage to go from >10
	seconds to <0.4 second for one example (converting a 30MB equation of
	state file from PDB to HDF5 format). The optimization is to simply
	keep track of the largest item in the free list and not search the
	free list when the largest item is not big enough to satisfy the
	request.

./src/H5FDcore.c
./src/H5FDcore.h
./test/h5test.c
	If the `backing_store' property is true then a flush causes the entire
	contents of memory to be written to the specified file. This is  in
	preparation for the ASCI/red optimizations and is currently tested by
	the pdb2hdf `--cached' switch.

./src/H5Odtypes.c
	Wrapped three long lines.

./tools/Makefile.in
./tools/pdb2hdf.c		[NEW]
	A PDB-to-HDF5 translator. It only translates meta data -- the
	resulting HDF5 points into the PDB file for the raw data.