Add 0x800 (supplementary alignment) flag.

git-svn-id: http://svn.code.sf.net/p/picard/code/trunk@1564 8bce386e-0d6e-43e0-b1ca-608082c0432d
Added a method to take in a list of files which are a mix of "usable" files and text files listing one usable file per line and process it into a larger list of usable files.

git-svn-id: http://svn.code.sf.net/p/picard/code/trunk@1565 8bce386e-0d6e-43e0-b1ca-608082c0432d
Updated IterableIterator to IterableOnceIterator that throws an exception if multiple calls to iterator() are made.

git-svn-id: http://svn.code.sf.net/p/picard/code/trunk@1566 8bce386e-0d6e-43e0-b1ca-608082c0432d
When there are duplicate headers in the metrics file don't try to generate a PDF as it will crash and burn

git-svn-id: http://svn.code.sf.net/p/picard/code/trunk@1567 8bce386e-0d6e-43e0-b1ca-608082c0432d
Fix copyright message.

git-svn-id: http://svn.code.sf.net/p/picard/code/trunk@1568 8bce386e-0d6e-43e0-b1ca-608082c0432d
Release 1.100

git-svn-id: http://svn.code.sf.net/p/picard/code/trunk@1569 8bce386e-0d6e-43e0-b1ca-608082c0432d
Trivial -- adding 'final' keyword where desired

git-svn-id: http://svn.code.sf.net/p/picard/code/trunk@1572 8bce386e-0d6e-43e0-b1ca-608082c0432d