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author | zsloan | 2022-02-21 21:18:46 +0000 |
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committer | zsloan | 2022-02-21 15:27:29 -0600 |
commit | 7c9e73f196575cd6d1de7df4430bc2b4ecb28466 (patch) | |
tree | 10c5f75b683f8438745b0a1d489069fc3225c6a9 /README.md | |
parent | 17652b17455bd58bf82d130b60b3e80c57b7f80c (diff) | |
download | genenetwork2-7c9e73f196575cd6d1de7df4430bc2b4ecb28466.tar.gz |
Fix incorrect dataset trait data caching
Trait data caching wasn't working correctly because it didn't account
for the samplelist, causing caching to work incorrect in any situation
where the target dataset's samplelist wasn't the same as that of the
trait being correlated against. Trait data is stored as a dictionary
where the keys are trait IDs and values are *lists* of sample values.
This means that the caching needs to account for the exact same set of
samples; otherwise you'll end up with samples being mismatched (since
"the third sample with a value" for one dataset's trait might not be the
same as "the third sample with a value" for another dataset's trait).
To fix this, I added the samplelist to the functions that generate and
fetch the hash file. This will require more cache files, though, so this
should probably be reexamined later to make the code work with only a
single cache file for each dataset.
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