diff options
author | Muriithi Frederick Muriuki | 2021-08-30 11:44:37 +0300 |
---|---|---|
committer | Muriithi Frederick Muriuki | 2021-08-30 11:44:37 +0300 |
commit | 58f59b8f7df82969b58a604070aec095d17e0501 (patch) | |
tree | a428d08e0a5eefe8d608fe74fc04f30f3952c362 /tests/unit/db/test_traits.py | |
parent | bb1fd69fa24cec4ff605450d241601b3f0ced8cb (diff) | |
download | genenetwork3-58f59b8f7df82969b58a604070aec095d17e0501.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.
Diffstat (limited to 'tests/unit/db/test_traits.py')
0 files changed, 0 insertions, 0 deletions