Closed zmertens closed 6 years ago
Can one of the admins verify this patch?
@anderspitman Here is the work on the DAWG Python wrapper.
GoldenRetriever.py
was the first set up that doesn't use any BioPython (it is just a wrapper around DAWG's IO and evolver/alignment functions).Akita.py
is a bit more loyal to BioPython.Still working on Greyhound.py
which will try to be faster than the pure C++. That's the dream.
Time for 1000 runs using the time_akita.sh
script:
PyDawg - Akita
real 2m8.856s
user 1m58.667s
sys 0m8.500s
Pure CPP Dawg
real 0m0.364s
user 0m0.013s
sys 0m0.103s
Can one of the admins verify this patch?
Putting up this PR to keep track of changes and progress for making a Python module for DAWG.
Dawg_Python_Analysis.md