some changes

weizhongchun · weizhongchun · commit b331a665e801 · 2026-01-12T23:04:26.000+08:00
diff --git a/tests/test_algorithm_comparison.py b/tests/test_algorithm_comparison.py
@@ -226,6 +226,7 @@ def run_algorithm(self, algorithm: str, mzml_file: Path, idxml_file: Path, outpu
                     "--fragment-error-units", "Da",
                     "--threads", "1",
                     "--min-num-psms-model", "50",
+                    "--target-modifications", "Phospho(S),Phospho(T),Phospho(Y),PhosphoDecoy(A)",
                 ],
             )
         elif algorithm == "ascore":
@@ -452,6 +453,7 @@ def test_generate_comparison_report(self, data_dir, mzml_file, idxml_file):
                     "--fragment-error-units", "Da",
                     "--threads", "1",
                     "--min-num-psms-model", "50",
+                    "--target-modifications", "Phospho(S),Phospho(T),Phospho(Y),PhosphoDecoy(A)",
                 ],
             )
             

Original file line number	Diff line number	Diff line change
`@@ -226,6 +226,7 @@ def run_algorithm(self, algorithm: str, mzml_file: Path, idxml_file: Path, outpu`
`226`	`226`	`"--fragment-error-units", "Da",`
`227`	`227`	`"--threads", "1",`
`228`	`228`	`"--min-num-psms-model", "50",`
	`229`	`+ "--target-modifications", "Phospho(S),Phospho(T),Phospho(Y),PhosphoDecoy(A)",`
`229`	`230`	`],`
`230`	`231`	`)`
`231`	`232`	`elif algorithm == "ascore":`
`@@ -452,6 +453,7 @@ def test_generate_comparison_report(self, data_dir, mzml_file, idxml_file):`
`452`	`453`	`"--fragment-error-units", "Da",`
`453`	`454`	`"--threads", "1",`
`454`	`455`	`"--min-num-psms-model", "50",`
	`456`	`+ "--target-modifications", "Phospho(S),Phospho(T),Phospho(Y),PhosphoDecoy(A)",`
`455`	`457`	`],`
`456`	`458`	`)`
`457`	`459`