temporary disabled some tests due to core dumps on lyorn; probably lyorn-specific RSS limits
Merge branch 'master' of github.com:ged-lab/khmer
switched back to .so extension for defaault
Moved get_median_count from CountingHash to Hashtable; implemented sweep-reads2.

'sweep-reads2' loads input reads into a hashbits table and then "sweeps" reads
out of another file if they have a median kmer count of 1, i.e. if half or more
of their k-mers are present in the hashbits table.  Since the median k-mer
count function would have been identical in both the Hashbits and CountingHash
subclasses of Hashtable, I promoted it to a base class function.

One use of this is is to use partitions from diginormed data to recover
the full undiginormed members of the partitions from the original data.
It can also be used as an approximate way to pull out reads from one
data set that overlap with reads in another data set, although cumulative
diginorm + partitioning is a better way to do that if you have the memory.
remove .ds store file
Merge remote-tracking branch 'ged/master'
merged ctb/master and ged/master
Merge branch 'master' into bleeding-edge.  This updates bleeding-edge with the get_median_count move into Hashtable.

Conflicts:
	lib/Makefile
	lib/hashbits.cc
	lib/hashtable.cc
	lib/hashtable.hh
fixed ZLIB build command to take note of SO_EXT/DYLIB_EXT
removed unused variable
some thoughts on sequence access patterns
Added a single script 'do-partition.py' that does partitioning mostly in memory.

This script combines the basic functionality of load-graph, partition-graph,
merge-partitions, and annotate-partitions into one script.
Merge branch 'master' of github.com:ctb/khmer

Conflicts:
	tests/test_scripts.py
updated docs with do-partition.py