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authorMuriithi Frederick Muriuki2021-08-30 11:44:37 +0300
committerMuriithi Frederick Muriuki2021-08-30 11:44:37 +0300
commit58f59b8f7df82969b58a604070aec095d17e0501 (patch)
treea428d08e0a5eefe8d608fe74fc04f30f3952c362 /tests/unit/test_db_utils.py
parentbb1fd69fa24cec4ff605450d241601b3f0ced8cb (diff)
downloadgenenetwork3-58f59b8f7df82969b58a604070aec095d17e0501.tar.gz
Fix issues with traits file format
* README.md: update header: Traits ==> Trait * gn3/computations/qtlreaper.py: update header: Traits ==> Trait * qtlfilesexport.py: Choose only BXD strains Rename the first column header from "Traits" to "Trait" to correspond with what `rust-qtlreaper` expects. Choose only the BXD strains for the proof-of-concept example - this helped bring out the fact that the traits file SHOULD NOT contain a strain column for a strain that does not exist in the genotype file in consideration. If the traits file has a strain column which does not exist in the genotype file, then `rust-qtlreaper` fails with a panic, since, from what I can tell, it tries to get a value from the genotype file for the non-existent strain, which results to a `None` type. Subsequent attempts at running an operation on the `None` type lead to the panic.
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