{"shas":[["9a3dc2d1d8876ebc675c01555c2743b439e77f6a","9267d18692f6d0fd55dfbd8cac7ca8412a6e653c@berkeley.edu","A little bit of general cleaning up","Chris Miller"],["4a8de610cb8d26d47ca607437c0db0ae0c6e2d93","9267d18692f6d0fd55dfbd8cac7ca8412a6e653c@berkeley.edu","-  Rewrote substantial part of the code with aim of making likelihood calculation faster.  Moved some of the likelihood calculation to Cython.  The likelihood function now typically takes < 1/2 the time it used to, and iterations as a whole typically see a speed up of roughly 150 to 200  percent.\n-  Added setup.py script to aid in building Cython C module (_emirge.so), and to install emirge.\n-  Modified README.txt to indicate that Cython is now a dependency (it already was implicitly for pysam) and to give quick installation instructions.","Chris Miller"]],"ref":"refs/heads/master","size":2,"head":"4a8de610cb8d26d47ca607437c0db0ae0c6e2d93","push_id":38170071}