library -> shard, libsize -> srasize, moved mapreduce functions to Subfunctions.pm
total_shards seems clearer than num_shards here
cleaning up the comments and print statements
Merge branch 'master' into semantic_remapping

Conflicts:
	lib/Subfunctions.pm
changed wording so that we refer to shards instead of processes (confusing)
renamed $short_read_archive to $atram_db, $intermediate to $temp_name, fixed $save_temp flag.
oops, "" not 0
cleaning up some extra temp stuff
rename file to format_sra from makelibrary
update POD description.
it seems to work okay even if numshards ends up even.
change some print statements to use the printlog subfunction.
Merge pull request #92 from juliema/semantic_remapping

Semantic remapping