bug fix: error when read fastq.gz

shimlab · Nov 22, 2023 · 38f0848 · 38f0848
1 parent f346991
commit 38f0848
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Showing 2 changed files with 6 additions and 5 deletions.
diff --git a/blaze/read_assignment.py b/blaze/read_assignment.py
@@ -153,10 +153,11 @@ def _read_and_bc_batch_generator_with_idx(fastq_fns, putative_bc_csv, batch_size
 
  for batch in batch_iter:
  batch_len = len(batch)
- batch_bc_df = StringIO(
- putative_bc_header + \
- ''.join([next(putative_bc_f) for x in range(batch_len)])
- )
+ batch_bc_df = pd.read_csv(
+ StringIO(
+ putative_bc_header + \
+ ''.join([next(putative_bc_f) for x in range(batch_len)])
+ ))
  yield batch, read_idx, batch_bc_df
  read_idx += batch_len
  else:

diff --git a/setup.py b/setup.py
@@ -5,7 +5,7 @@
 
 setup(
  name='blaze2',
- version='2.1.3',
+ version='2.1.4',
  author='Yupei You',
  author_email="youyupei@gmail.com",
  description='Barcode identification from Long reads for AnalyZing single cell gene Expression',