mdanalysis
mdanalysis copied to clipboard
asv: remove distances.DistancesBench.time_contact_matrix_sparse 10,000 benchmark
Expected behavior
All ASV benchmarks for the latest develop run (see benchmarks.benchmarks for the code and the MDAnalysis/benchmarks repo + the benchmarks wiki for more details.)
Actual behavior
The distances.DistancesBench.time_contact_matrix_sparse test times out as shown below (recent output from nightly run on Python 3.6).
[ 82.69%] ··· ...es.DistancesBench.time_contact_matrix_sparse 1/4 failed
[ 82.69%] ··· =========== ============
num_atoms
----------- ------------
10 396±2μs
100 36.9±0.2ms
1000 3.79±0.01s
10000 failed
=========== ============
[ 82.69%] ···· For parameters: 10000
asv: benchmark timed out (timeout 60.0s)
We can either speed up the benchmark (not sure how as this is might be due to slow sparse matrix routines), reduce the size, or remove it (easiest option).