Merge pull request #101 from levitsky/tweak_pepxml_pattern

Recognize .pep.xml files
compomics · Nov 1, 2024 · 27b8591 · 27b8591
2 parents fe52146 + 0a8b005
commit 27b8591
Show file tree

Hide file tree

Showing 2 changed files with 4 additions and 1 deletion.
diff --git a/psm_utils/io/__init__.py b/psm_utils/io/__init__.py
@@ -69,7 +69,7 @@
         "reader": pepxml.PepXMLReader,
         "writer": None,
         "extension": ".pepxml",
-        "filename_pattern": r"^.*\.pepxml$",
+        "filename_pattern": r"^.*\.pep\.?xml$",
     },
     "percolator": {
         "reader": percolator.PercolatorTabReader,

diff --git a/tests/test_io/test___init__.py b/tests/test_io/test___init__.py
@@ -18,6 +18,9 @@ def test__infer_filetype():
         ("name.t.xml", "xtandem"),
         ("name.msamanda.csv", "msamanda"),
         ("name_msamanda.csv", "msamanda"),
+        ("name.pepxml", "pepxml"),
+        ("name.pepXML", "pepxml"),
+        ("name.pep.xml", "pepxml"),
     ]
     for test_in, expected_out in test_cases:
         assert _infer_filetype(test_in) == expected_out