OPS: SequentialEnsemble timing optimization

count_lines_between.gnuplot

plot '<grep -n "STARTING FRAME" find_bug.log | awk "{ FS=\":\"; print $1}"' u 0:($1/$0)

debug_logging.conf

# Default configuration file for OpenPathSampling loggers
[loggers]
keys=root,initialization

[handlers]
keys=stdout,initf,stdf

[formatters]
keys=standardFormatter,msgOnly

[handler_stdout]
class=StreamHandler
level=NOTSET
#formatter=standardFormatter
formatter=msgOnly
args=(sys.stdout,)

[handler_initf]
class=FileHandler
level=INFO
formatter=standardFormatter
args=('initialization.log', 'w')

[handler_stdf]
class=FileHandler
level=DEBUG
formatter=standardFormatter
args=('debug.log', 'w')

[logger_root]
level=DEBUG
handlers=stdf

[logger_initialization]
level=INFO
handlers=initf
qualname=openpathsampling.initialization
propagate=0

[formatter_standardFormatter]
format=(%(levelname)s)%(name)s: %(message)s

[formatter_msgOnly]
format=%(message)s

SeqEnsTiming.md

Optimization of the SequentialEnsemble

This gist includes files I used to look into performance questions for the SequentialEnsemble in OpenPathSampling.

This gist is to attach some files which relate to the discussion in OPS #222.

SeqEnsTimings.numbers

minimal.png

minimal.py

more_seq_ens_timing_tests.ipynb

seq_ens_timing.ipynb

shooting_speed_test.ipynb

traj_vs_list.ipynb