Now uses gzip directly to figure out the uncompressed size
of a gzipped file (this shouldn't be >= 2Gb either...).
Compress::Zlib doesn't do this.

Abstracted store/retrieve SQL out of EnsemblSearchMulti, EnsemblResult, EnsemblHit and EnsemblHSP, and into appropriate new methods in BlastAdaptor

new revision if its uncompressed, otherwise just copy it.

Only skip checksum verification if the patch command was PATCH.

are bigger (!) than the newer revision...

in binary mode (oops).

overcome long filename problems.

Won't touch mart databases (or anything matching $avoid_re).
Will only work with revision 14 and 15 (or anything matching $require_re).

after cleaning up whatever it was doing at the time.  This means
restarting the process later is easier and safer.

Reordered call tree.
Corrected redirection bug.
Removed coprocess that Tru64 KornShell88 didn't like ("memory fault").

compressed.  Apparantly xdelta will recompress the patched file in a
way that might result in slight differences when compared to the
original file.