I have two arrays. The first array consists of tens of millions of rows and three columns with a string, a number, and a string.
array1 = {{string1, 145745, a}, {string2, 56546, a}, {string3, 56546, b},
{string3, 246, b}, {string7, 12355, a}, {string7, 12355, b}}
The second array has hundreds of thousands of rows but also consists of three columns but with a string, a number, and a number.
array2 = {{string1, 145745, 3.14324}, {string3, 56546, -0.34319}, {string7, 12355, 0.23535}}
In array2
, the first two elements of each row matches the first two elements of a row (or, at most, two rows) in array1. In other words, array2[[All,{1,2}]]
is a subset of array1[[All,{1,2}]]
.
The goal is to take from array1
all the rows that have matching rows in array2
(when comparing only the first two columns from each array). For example, from the two given arrays above, the final result would be
result = {{string1, 145745, a},{string3, 56546, b},{string7, 12355, a},{string7, 12355, b}}
The fastest command I've come up with is
m=Dimensions[array2][[1]];
Do[
Pick[array1,array1[[All,{1,2}]],array2[[i,{1,2}]]]//Sow
,{i,m}
]//Reap
but this is still too slow. This is a simple problem, but I am really looking for the fastest method possible.
Any ideas?
EDIT
Previously, I erroneously had
array1 = {{string1, 145745, a}, {string2, 56546, a}, {string3, 56546, b},
{string3, 246, b}, {string7, **145745**, a}, {string7, 12355, b}}
which should have been
array1 = {{string1, 145745, a}, {string2, 56546, a}, {string3, 56546, b},
{string3, 246, b}, {string7, **12355**, a}, {string7, 12355, b}}
This has been corrected above.
Answer
Here is the realization of hashing mentioned by @whuber, and it is based on a modified and faster version of MemberPositions
function discussed here. The current version is based on some code due to Norbert Pozar. Here it is:
memberPositions[x_List, y_List] :=
Module[{tag},
Pick[
Range[Length[x]],
Replace[x, Dispatch[Thread[Rule[Intersection[x, y], tag]]], {1}],
tag
]
];
It finds positions in x
where some elements contained in y
are present. Here is a simple example:
memberPositions[{1,3,5,7,9},{3,9}]
(* {2,5} *)
Despite the experiences of @whuber with Dispatch
- based code, this particular code seems to scale well. The actual solution is then (thanks to the OP for correcting my original somewhat incorrect code):
array1[[memberPositions[array1[[All, {1, 2}]], array2[[All, {1, 2}]]]]]
Taking the benchmark examples from the code of @whuber with n1=10^5, n2=2*10^4
, this solution is speed - equivalent to his. To see that we get the same results, one would have to act with Flatten[#,1]&
on the result of @whuber.
For the OP's original arrays I get:
(*
{{string1, 145745, a}, {string3, 56546, b},
{string7, 12355, a}, {string7, 12355, b}}
*)
which seems to be a right answer.
I was not able to check with the larger arrays, since the code of @whuber appears to be quite memory-hungry (as he mentioned himself) and my 6GB were not enough. My guess is that the culprit is GatherBy
, which seems to have quadratic memory use as a function of array's size. For his sizes of arrays, my code finished in 2.5 seconds (all this tested on V8.0, AMD Phenom II X4 2.8 GHz, 6GB RAM).
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