Four test cases were used to score execution time.
Case 1: 10 e.Coli segments queried with the same data parsed into 800 base segments
Case 2: 400 e.Coli segments queried with the 800 base segments from 10 e.Coli segments
Case 3: 12 one million base segments quereied with 10 e.Coli segments
Case 4: 12 one million base segments queried with 400 e.Coli segments
One addition to the query file for the first two cases was a string of "TTTTTT".
Case 1 should find all query strings at regular 800 base intervals. Case 2 should have the same output as Case 1 with extra segment matches in segments 11-400. Case 3 should have no matches for any of the 10 queries, and Case 4 should have four total segment matches (repeated 3 times due to repeated data in data base file). A maximum of two minutes was set for each input test case.
There were 10 submissions of code solutions, 5 on Linux and 5 on Windows. There was one entry written in C#, one threaded with Cilk++, and the rest in C/C++. Two entries had runtime issues or errors (but not for all test cases), and one entry time out in all test cases (after sucking up 98.7% of the available memory). Penalty points were assessed to entries for coding problems and incomplete output.
Point spread:
100
99 99 99
89 89
49
25
19
0(x4)
The write-up portion of each entry was read and scored by two judges. Each judge used the 10-30-10 breakdown of points for serial algorithm description, parallel algorithm description, and performance, respectively. One important component to the judging was to determine how close the submission was for publication on ISN. The assigned score was the average of the two judges scores.
Point spread:
44
29 27 22 21
17 13 10
8 6 5
0 0
Bonus points were given for contestant’s forum posts made before the problem entries were closed. Five points per post (maximum 25 points possible) were awarded.
The overall winner was Bradley Kuszmaul, who also had the highest scoring write-up submission. The fastest code execution was submitted by akki.
--clay
P.S. I appreciate the patience of all the contestants for this problem and the last two of the series with regards to my absence and the delays that has caused with scoring and announcing winners. (I hope to take the intervening months and get my act together with some planning and other prep work to have the next phase run smoother and faster.)
I guess I did not get anywhere because I had not attached the files that I had downloaded.
