From ce243a57b24d6adecb169487e706290d91b22d19 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Tue, 20 Feb 2024 10:57:56 +0300
Subject: Track filename in the errors

R/qtl2 bundles can contain more than one file, of the same type. When
errors are encountered in any of the files, we need to be able to
inform the user which file it is, in addition to the line and column
number.
---
 scripts/qc_on_rqtl2_bundle.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'scripts')

diff --git a/scripts/qc_on_rqtl2_bundle.py b/scripts/qc_on_rqtl2_bundle.py
index d77b6c2..027f387 100644
--- a/scripts/qc_on_rqtl2_bundle.py
+++ b/scripts/qc_on_rqtl2_bundle.py
@@ -116,7 +116,7 @@ def qc_geno_errors(rconn, fqjobid, zfile, logger) -> bool:
         logger.info("Checking for errors in the 'geno' file…")
         gerrs = tuple(retrieve_errors_with_progress(
             rconn, fqjobid, zfile, "geno",
-            (rqc.make_genocode_checker(cdata.get("genotypes", {})),)))
+            (rqc.make_genocode_checker(cdata.get("genotypes", {}), "geno"),)))
         add_to_errors(rconn, fqjobid, "errors-generic", tuple(
             err for err in gerrs if isinstance(err, rqfe.MissingFile)))
         add_to_errors(rconn, fqjobid, "errors-geno", tuple(
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