ZipHandle: remove unnecessary entryCount logic
ZipEntry: fix whitespace
ZipHandle: consolidate setFile methods

This eliminates duplicate code between the two setFile methods, in favor
of having one delegate to the other.
ZipHandle: make length computation more efficient

The previous approach was to skip one byte at a time over the entire zip
entry, which was excruciatingly slow. The new approach simply asks the
ZipEntry for its uncompressed size directly.
Added null check when setting entryName

When setting a ZipHandle entryName field, check to see if the provided
entry is null (which it always will be if the setFile(String) signature
was called).
Revert "ZipHandle: make length computation more efficient"

This reverts commit fed74262eb05c5dbacfb4081c32d502ced23db65.

The seekToEntry and length population can not be consolidated, as
apparently the entry size field is not guaranteed to be populated. Thus
the method of reading until empty seems to be correct.
Revert "ZipHandle: remove unnecessary entryCount logic"

This reverts commit 8b0f46245efda8f62932a7dbffae95c6b270d869.

Marked the method deprecated instead of removing it outright.
Fixed ImageMetadata population

When populating ImageMetadata using an OMEXMLMetadata, was accidentally
counting size Z as both Z and T axis lengths. Fixed.