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author | Muriithi Frederick Muriuki | 2021-07-22 15:47:27 +0300 |
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committer | Muriithi Frederick Muriuki | 2021-07-22 15:47:27 +0300 |
commit | 2b32b2da36d880e3d8cdaedd1775be02ebb5cd5f (patch) | |
tree | 4ff26a5ccc978fceedf01057e2a62d3e5837a0a2 /gn3/computations/__init__.py | |
parent | f334b5ec5d51235d0daddc0c4fe700cb65bd825d (diff) | |
download | genenetwork3-2b32b2da36d880e3d8cdaedd1775be02ebb5cd5f.tar.gz |
Get shortest distance from two lists/tuples of member coordinates
* gn3/computations/slink.py: add code to ensure new test passes
* tests/unit/computations/test_slink.py: new test
This one is a little weird: from
https://github.com/genenetwork/genenetwork1/blob/master/web/webqtl/heatmap/slink.py#L57-L63
It gets rid of the last coordinates in both the lists of the member
coordinates, and uses the remaining coordinates to find the shortest
members.
For example, given the following member coordinates:
- i=[0,1,2] and j=[5,7,9], it uses [0,1] and [5,7]
- i=[3,6,1] and j=[7,13], it uses [3,6] and [7]
to find the shortest distances.
I (fredmanglis) am not sure why it does it this way, since I'd have expected
it to use all the coordinates, however, since at this time we need to retain
bug-compatibility with the older code, I have done it as it is done in the
old code.
I also add a statement to raise an exception in the case where i and j are
not lists of integers, or integers
Diffstat (limited to 'gn3/computations/__init__.py')
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