From d6d093f89bb4ed041e63376f42628a1e3f143b5c Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Thu, 16 Apr 2026 14:13:49 -0500
Subject: Improve error messages.

To help users better understand what the problem with their data is,
the errors need to be clearer to them. This commit fixes some error
messages.
---
 scripts/rqtl2/phenotypes_qc.py | 7 ++++---
 1 file changed, 4 insertions(+), 3 deletions(-)

(limited to 'scripts')

diff --git a/scripts/rqtl2/phenotypes_qc.py b/scripts/rqtl2/phenotypes_qc.py
index 72d6c83..084c876 100644
--- a/scripts/rqtl2/phenotypes_qc.py
+++ b/scripts/rqtl2/phenotypes_qc.py
@@ -198,7 +198,7 @@ def qc_phenocovar_file(
                     "-",
                     "-",
                     (f"File {filepath.name} is missing the {heading} heading "
-                     "in the header line."))),)
+                     "in the header row/line."))),)
 
         def collect_errors(errors_and_linecount, line):
             _errs, _lc = errors_and_linecount
@@ -312,8 +312,9 @@ def qc_pheno_file(# pylint: disable=[too-many-locals, too-many-arguments, too-ma
                 "header row",
                 "-",
                 ", ".join(_absent),
-                ("The following phenotype names do not exist in any of the "
-                 f"provided phenocovar files: ({', '.join(_absent)})"))),)
+                ("The following trait names/identifiers do not exist in any of "
+                 "the provided descriptions/covariates files: "
+                 f"({', '.join(_absent)})"))),)
 
         def collect_errors(errors_and_linecount, line):
             _errs, _lc = errors_and_linecount
-- 
cgit 1.4.1