zenlc2000 / pycuda-euler Goto Github PK
View Code? Open in Web Editor NEWUsing PyCUDA to re-implement the GPU Euler de novo assembler.
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pyencode.py testing
pyencode.py runs all the way through but I have no idea if its output is correct. Need some form of testing.
Adapt / Write Eulercuda.py as main file
Create Readme explaining project
Write PyCuda version of Encode file
Module file to encapsulate the Encode GPU kernel code.
pydebruijn.py
Create pydebruijn.py to encapsulate the DeBruijn graph construction code in debruijn.cu.
Create inital Graph Classes
Design and implement a class for DeBrujin graphs
Prepare pycuda wrapper files for each of the cuda kernel files
Determine if it makes sense to load whole files or add code blocks to python files. Decide if we should import all cuda code at the beginning or one step at a time
pyeulertour.py
Create PyCuda wrapper module for the Euler Tour code.
Create configuration scripts to setup testing and deployment
Basically setuo some scripts to provision and configure the EC2 instances
Pygpuhash.py
Create pygpuhash.py to encapsulate the GPU hashing routines.
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