Merge pull request #2 from AlphonsG/dev4

Dev4
AlphonsG · Oct 16, 2023 · 75cd33f · 75cd33f
2 parents b8c0039 + c0c11f3
commit 75cd33f
Show file tree

Hide file tree

Showing 2 changed files with 7 additions and 1 deletion.
diff --git a/bimana/live_cell_imaging/metrics_file_processing.py b/bimana/live_cell_imaging/metrics_file_processing.py
@@ -163,6 +163,9 @@ def create_dataframes(
             f.seek(0)
             df = pd.read_csv(f, names=range(num_cols), delimiter='\t',
                              header=None)
+        if df.iloc[1, 0] == 'Date Time':
+            placeholder = pd.DataFrame(np.random.rand(5, df.shape[1]))
+            df = pd.concat([placeholder, df]).reset_index(drop=True)
 
         if df.loc[6, 0] is not np.nan:
             df.loc[5.5] = [np.nan] * num_cols
@@ -283,7 +286,10 @@ def compute_fold_changes(
             else:
                 ctrl_idx = 0
 
+        if np.inf in fld_chg_df.values:
+            print(f'{self.txt_file}: Fold change data frame has inf values.')
         fld_chg_df.fillna(0, inplace=True)
+        fld_chg_df.replace(np.inf, 0, inplace=True)
 
         return fld_chg_df
 

diff --git a/pyproject.toml b/pyproject.toml
@@ -18,7 +18,7 @@ dependencies = [
     "click-web",
     "scipy",
     "opencv-python",
-    "pandas",
+    "pandas<2.0.0",
     "pyvips",
     "matplotlib",
     "kornia",