unset normalization defaults

compomics · May 7, 2024 · b89b0fb · b89b0fb
1 parent c6073e1
commit b89b0fb
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Showing 2 changed files with 3 additions and 3 deletions.
diff --git a/ms2pip/__main__.py b/ms2pip/__main__.py
@@ -127,7 +127,7 @@ def predict_library(*args, **kwargs):
     logger.info(f'Finished writing output to {output_name_csv}')
     #TODO: add support for other output formats
     # Initial implementation of writing to MSP format
-    so = SpectrumOutput(predictions, normalization="basepeak_10000")
+    so = SpectrumOutput(predictions)
     so.write_msp()
 
 

diff --git a/ms2pip/spectrum_output.py b/ms2pip/spectrum_output.py
@@ -62,7 +62,7 @@ def __init__(
         write_mode="wt+",
         return_stringbuffer=False,
         is_log_space=True,
-        normalization="basepeak_10000",
+        normalization=None,
     ):
         """
         Write MS2PIP predictions to various output formats.
@@ -85,7 +85,7 @@ def __init__(
             case, intensities will first be transformed to "normal"-space.
         normalization: str, optional
             Normalization method to use. Options are "basepeak_10000", "basepeak_1", and
-            "tic" (default: "basepeak_10000")
+            "tic" (default: None)
 
         Example
         -------