Update molecules benchmark

prism/benchmark.org

@@ -727,6 +727,9 @@
 
    Benchmarks:
 
+   We partition on the current number of ~Na~ or ~Mg~ atoms at the current
+   state.
+
    #+NAME: molecules_benchmarks
    | Model | Constants                             | Partition |
    |-------+---------------------------------------+-----------|
@@ -745,17 +748,17 @@
    #+CALL: bench(molecules_benchmarks)
 
    #+RESULTS:
-   | Model | Constants                             | Partition |     Time(s) |
-   |-------+---------------------------------------+-----------+-------------|
-   | nacl  | N1=10,N2=10,T=0:0.001:0.006,i=4       | na        | 0.002174453 |
-   | nacl  | N1=10,N2=10,T=0:0.001:0.006,i=0       | na        | 0.003044715 |
-   | nacl  | N1=10,N2=10,T=0,i=0                   | na        | 0.002051871 |
-   | knacl | N1=10,N2=10,N3=10,T=0:0.001:0.006,i=4 | na        | 0.004058964 |
-   | knacl | N1=10,N2=10,N3=10,T=0:0.001:0.006,i=0 | na        | 0.004528294 |
-   | knacl | N1=10,N2=10,N3=10,T=0,i=0             | na        | 0.004626518 |
-   | mc    | N1=10,N2=10,T=0:0.001:0.006,i=4       | mg        | 0.003869437 |
-   | mc    | N1=10,N2=10,T=0:0.001:0.006,i=0       | mg        | 0.003475209 |
-   | mc    | N1=10,N2=10,T=0i=0                    | mg        | 0.004325282 |
+   | Model | Consts                                | Partition | States | Edges | Sort 0 |  I |   Q |         t(s) |       t_p(s) |       t_r(s) |
+   |-------+---------------------------------------+-----------+--------+-------+--------+----+-----+--------------+--------------+--------------|
+   | nacl  | N1=10,N2=10,T=0:0.001:0.006,i=4       | na        |     22 |    31 |     11 | 22 |  22 | 0.0012944150 | 0.0009634090 | 0.0002411550 |
+   | nacl  | N1=10,N2=10,T=0:0.001:0.006,i=0       | na        |     22 |    31 |     11 | 22 |  22 | 0.0012162310 | 0.0008826650 | 0.0002477660 |
+   | nacl  | N1=10,N2=10,T=0,i=0                   | na        |     22 |    31 |     11 | 22 |  22 | 0.0012494110 | 0.0009169500 | 0.0002407770 |
+   | knacl | N1=10,N2=10,N3=10,T=0:0.001:0.006,i=4 | na        |    132 |   286 |     66 | 76 | 132 | 0.0042323030 | 0.0030404590 | 0.0010718420 |
+   | knacl | N1=10,N2=10,N3=10,T=0:0.001:0.006,i=0 | na        |    132 |   286 |     66 | 76 | 132 | 0.0042242410 | 0.0029981130 | 0.0010970890 |
+   | knacl | N1=10,N2=10,N3=10,T=0,i=0             | na        |    132 |   286 |     66 | 76 | 132 | 0.0042726040 | 0.0030445160 | 0.0010900700 |
+   | mc    | N1=10,N2=10,T=0:0.001:0.006,i=4       | mg        |     72 |   146 |     36 | 47 |  72 | 0.0023568160 | 0.0015494180 | 0.0007299610 |
+   | mc    | N1=10,N2=10,T=0:0.001:0.006,i=0       | mg        |     72 |   146 |     36 | 47 |  72 | 0.0020013230 | 0.0013408520 | 0.0005908430 |
+   | mc    | N1=10,N2=10,T=0i=0                    | mg        |     72 |   146 |     36 | 47 |  72 | 0.0018785460 | 0.0012647630 | 0.0005537100 |
 
 ** Mutual Exclusion