From ab71b34b97f3f1eee52b5688f41644541535f281 Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Mon, 5 Feb 2024 07:00:01 +0300
Subject: Do general bundle validation and show errors

* Display any and all errors on the UI
* Move `validate_bundle` to QC module and refactor to use
  `missing_files`
---
 r_qtl/r_qtl2_qc.py | 9 +++++++++
 1 file changed, 9 insertions(+)

(limited to 'r_qtl/r_qtl2_qc.py')

diff --git a/r_qtl/r_qtl2_qc.py b/r_qtl/r_qtl2_qc.py
index f666f40..261d300 100644
--- a/r_qtl/r_qtl2_qc.py
+++ b/r_qtl/r_qtl2_qc.py
@@ -3,6 +3,7 @@ from zipfile import ZipFile
 from functools import reduce
 from typing import Union, Sequence
 
+from r_qtl import errors as rqe
 from r_qtl import r_qtl2 as rqtl2
 from r_qtl.r_qtl2 import __FILE_TYPES__
 
@@ -45,3 +46,11 @@ def missing_files(zfile: ZipFile) -> tuple[str]:
 
     return tuple(filter(__missing_p__,
                         bundle_files_list(zfile, rqtl2.control_data(zfile))))
+
+def validate_bundle(zfile: ZipFile):
+    """Ensure the R/qtl2 bundle is valid."""
+    missing = missing_files(zfile)
+    if len(missing) > 0:
+        raise rqe.MissingFileError(
+                        "The following files do not exist in the bundle: " +
+                        ", ".join(missing))
-- 
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