No valid spectra found

falcon/falcon.py

@@ -107,6 +107,7 @@ def main(args: Union[str, List[str]] = None) -> int:
  f'{config.output_filename}.mgf')
  exit_exists = True
  if exit_exists:
+ logging.shutdown()
  return 1
  if config.overwrite:
  for filename in os.listdir(os.path.join(config.work_dir, 'spectra')):
@@ -209,6 +210,10 @@ def main(args: Union[str, List[str]] = None) -> int:
  clust_no_noise = clust[clust['cluster'] != -1]
  n_clusters += clust_no_noise['cluster'].nunique()
  n_spectra_clustered += len(clust_no_noise)
+ if n_spectra_clustered == 0:
+ logger.error('No valid spectra found for clustering')
+ logging.shutdown()
+ return 1
  logger.info('Export cluster assignments of %d spectra to %d unique '
  'clusters to output file %s', n_spectra_clustered, n_clusters,
  f'{config.output_filename}.csv')
@@ -274,7 +279,6 @@ def main(args: Union[str, List[str]] = None) -> int:
  shutil.rmtree(config.work_dir)
 
  logging.shutdown()
-
  return 0