From 13024b6bd1e7a84abc0d6b7b4aafadff75064168 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Thu, 17 Oct 2024 14:34:58 -0500
Subject: Leave TODO notes for what needs to be done.

---
 scripts/rqtl2/phenotypes_qc.py | 9 ++++++++-
 1 file changed, 8 insertions(+), 1 deletion(-)

(limited to 'scripts')

diff --git a/scripts/rqtl2/phenotypes_qc.py b/scripts/rqtl2/phenotypes_qc.py
index d565be2..b2b02ed 100644
--- a/scripts/rqtl2/phenotypes_qc.py
+++ b/scripts/rqtl2/phenotypes_qc.py
@@ -158,8 +158,15 @@ def run_qc(# pylint: disable=[too-many-arguments]
 
     #       - Check that `description` and `units` is present in phenocovar for
     #         all phenotypes
+    # qc_phenocovar_files(…)
+
+    #       - Check all samples in pheno files exist in database
     #       - Check all phenotypes in pheno files exist in phenocovar files
-    #       - Check all numeric values
+    #       - Check all numeric values in pheno files
+    # qc_pheno_files(…)
+    #       - Check the 3 checks above for phenose and phenonum values too
+    # qc_phenose_files(…)
+    # qc_phenonum_files(…)
     raise NotImplementedError("WIP!")
 
 
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