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DCPROGS / HJCFIT

Full maximum likelihood fitting of a mechanism directly to the entire sequence of open and shut times, with exact missed events correction.
GNU General Public License v3.0
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Benchmark code in ARCHER #98

Open raquelalegre opened 8 years ago

raquelalegre commented 8 years ago

Do as in #67 in ARCHER.

raquelalegre commented 8 years ago

Some progress done. I have run a job in ARCHER to test perfomance and compare with the performance on our laptops. fitGlyR4 seems to run a little bit faster in ARCHER nodes.

machine time
ARCHER 317s
Jens' Mac ~400s

I have created a sample job to run this benchmark here.

This will produce a profile output that can be scp'd locally and visualised with snakeviz, for example.

jenshnielsen commented 8 years ago

We could run

for n = 1 to 24 and measure the performance

export OMP_NUM_THREADS=n
aprun -d $OMP_NUM_THREADS time python fitGlyR4.py