From 38f0848fa9c14ad28276f93c66d2c69df3dfd8e4 Mon Sep 17 00:00:00 2001 From: youyupei Date: Wed, 22 Nov 2023 11:59:41 +1100 Subject: [PATCH] bug fix: error when read fastq.gz --- blaze/read_assignment.py | 9 +++++---- setup.py | 2 +- 2 files changed, 6 insertions(+), 5 deletions(-) diff --git a/blaze/read_assignment.py b/blaze/read_assignment.py index d5f7514..844a71b 100644 --- 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 index 9ff90d9..a10ce00 100644 --- 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',