On Thursday, 16 May 2013 at 10:35:12 UTC, Dicebot wrote:
Want to bring into discussion people that are not on Google+.
Samuel recently has posted there some simple experiments with
bioinformatics and bad performance of Phobos-based snippet has
surprised me.
I did explore issue a bit and reported results in a blog post
(snippets are really small and simple) :
http://dicebot.blogspot.com/2013/05/short-performance-tuning-story.html
One open question remains though - can D/Phobos do better here?
Can some changes be done to Phobos functions in question to
improve performance or creating bioinformatics-specialized
library is only practical solution?
May I also recommend my tool "avgtime" to make simple benchmarks,
instead of "time" (you can see an ascii histogram as the output):
https://github.com/jmcabo/avgtime/tree/
For example:
$ avgtime -r10 -h -q ls
------------------------
Total time (ms): 27.413
Repetitions : 10
Sample mode : 2.6 (4 ocurrences)
Median time : 2.6695
Avg time : 2.7413
Std dev. : 0.260515
Minimum : 2.557
Maximum : 3.505
95% conf.int. : [2.2307, 3.2519] e = 0.510599
99% conf.int. : [2.07026, 3.41234] e = 0.671041
EstimatedAvg95%: [2.57983, 2.90277] e = 0.161466
EstimatedAvg99%: [2.5291, 2.9535] e = 0.212202
Histogram :
msecs: count normalized bar
2.5: 2 ####################
2.6: 4 ########################################
2.7: 3 ##############################
3.5: 1 ##########
--jm
