errors about brie-quant

[liuyu988]

Hi, Yuanhua

I'm sorry to disturb you for so many times!
When i ran the brie-quant, i met a terrible error and i can't understand how to solve it!

my code:

brie-quant -i test5/brie_count.h5ad -o test5/brie_quant_cell.h5ad -c test5/cell_note.tsv --interceptMode gene --LRTindex=ALL

my cell_note.tsv:
I want to detect the differential events between the two celltype.

barcodes celltype type
AAACCTGAGAGGACGG-1 0 0
AAACCTGAGGGATACC-1 0 0
AAACCTGAGTCCAGGA-1 1 0
AAACCTGAGTTCGATC-1 1 0

my error:

Traceback (most recent call last):
  File "/public2/home/rotation/miniconda3/envs/TFProb/bin/brie-quant", line 8, in
    sys.exit(main())
  File "/public2/home/rotation/miniconda3/envs/TFProb/lib/python3.7/site-packages/brie/bin/quant.py", line 219, in main
    options.batch_size, options.pseudo_count, options.test_base)
  File "/public2/home/rotation/miniconda3/envs/TFProb/lib/python3.7/site-packages/brie/bin/quant.py", line 42, in quant
    adata = brie.read_h5ad(in_file)
  File "/public2/home/rotation/miniconda3/envs/TFProb/lib/python3.7/site-packages/anndata/_io/h5ad.py", line 236, in read_h5ad
    d[k] = read_dataframe(f[k])
  File "/public2/home/rotation/miniconda3/envs/TFProb/lib/python3.7/site-packages/anndata/_io/h5ad.py", line 301, in read_dataframe
    return read_elem(group)
  File "/public2/home/rotation/miniconda3/envs/TFProb/lib/python3.7/site-packages/anndata/_io/specs/registry.py", line 183, in read_elem
    return _REGISTRY.get_reader(type(elem), get_spec(elem), frozenset(modifiers))(elem)
  File "/public2/home/rotation/miniconda3/envs/TFProb/lib/python3.7/site-packages/anndata/_io/specs/methods.py", line 523, in read_dataframe
    {k: read_elem(elem[k]) for k in columns},
  File "/public2/home/rotation/miniconda3/envs/TFProb/lib/python3.7/site-packages/anndata/_io/specs/methods.py", line 523, in
    {k: read_elem(elem[k]) for k in columns},
  File "/public2/home/rotation/miniconda3/envs/TFProb/lib/python3.7/site-packages/anndata/_io/specs/registry.py", line 183, in read_elem
    return _REGISTRY.get_reader(type(elem), get_spec(elem), frozenset(modifiers))(elem)
  File "/public2/home/rotation/miniconda3/envs/TFProb/lib/python3.7/site-packages/anndata/_io/specs/methods.py", line 327, in read_string_array
    return read_array(d.asstr())
AttributeError: 'Dataset' object has no attribute 'asstr'

[liuyu988]

There seems be to have something wrong in scanpy.read_h5ad().

my version of scanpy is 1.9.1 installing from pip install -r requirements.txt.

Would you offer some help for me ? thanks