exception logging

src/snipe/api/multisig_reference_QC.py

@@ -623,7 +623,8 @@ def sort_chromosomes(chrom_dict):
             # calculate the CV for the whole sample
             if autosomal_chr_to_mean_abundance:
                 mean_abundances = np.array(list(autosomal_chr_to_mean_abundance.values()), dtype=np.float64)
-                cv = np.std(mean_abundances) / np.mean(mean_abundances) if np.mean(mean_abundances) > 0 and not np.isnan(np.mean(mean_abundances)) else 0.0
+                mean = np.mean(mean_abundances)
+                cv = np.std(mean_abundances) / mean if mean > 0 and not np.isnan(mean) else 0.0
                 chrs_stats.update({"Autosomal k-mer mean abundance CV": cv})
                 self.logger.debug("Calculated Autosomal CV: %f", cv)
             else:

src/snipe/cli/cli_ops.py

@@ -1118,6 +1118,7 @@ def detect_delimiter(file_path):
                     result = future.result()
                     results.append(result)
                 except Exception as e:
+                    logger.exception(f"Processing of experiment '{exp_name}' failed with an exception.")
                     results.append({
                         'exp_name': exp_name,
                         'merged_signatures': [os.path.basename(p) for p in experiment_mapping[exp_name]],
@@ -1178,7 +1179,7 @@ def detect_delimiter(file_path):
     for r in results:
         total_skipped += len(r.get('skipped_signatures', []))
 
-    click.echo(f"\nGuided Merge Summary:")
+    click.echo("\nGuided Merge Summary:")
     click.echo(f"\t- Total experiments processed: {total_experiments}")
     click.echo(f"\t- Successful experiments: {successful_experiments}")
     click.echo(f"\t- Failed experiments: {failed_experiments}")