new file: metax/taxafunc_analyzer/analyzer_utils/lfq_multiprocessing.py

byemaxx · Oct 3, 2024 · 9a837a2 · 9a837a2
1 parent 45562bf
commit 9a837a2
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Showing 2 changed files with 887 additions and 6 deletions.
diff --git a/metax/taxafunc_analyzer/analyzer_utils/lfq.py b/metax/taxafunc_analyzer/analyzer_utils/lfq.py
@@ -852,16 +852,15 @@ def run_lfq(
 
 if __name__ == "__main__":
     import os
+    import time
+    t1 = time.time()
 
     current_dir = os.path.dirname(os.path.realpath(__file__))
     df_path = os.path.join(current_dir, "../../../local_tests/peptide_for_protein.tsv")
     df = pd.read_csv(df_path, sep="\t")
-    # reorder df by Proteins
-    df = df.sort_values(by="Proteins", ignore_index=True)
-    print(df.head())
-
-    norm_df = run_norm(df, protein_id="Proteins", quant_id="Sequence")
-    print(norm_df.head())
+
+    # norm_df = run_norm(df, protein_id="Proteins", quant_id="Sequence")
+    # print(norm_df.head())
 
     protein_df, ion_df = run_lfq(
         df,
@@ -872,3 +871,5 @@ def run_lfq(
         maximum_number_of_quadratic_ions_to_use_per_protein=10,
     )
     print(protein_df.head())
+    t2 = time.time()
+    print(f"Time: {t2-t1:.4f} s")