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Hi,
Thanks a lot for helping! I was following this tutorial (https://scanpy.readthedocs.io/en/stable/tutorials/basics/clustering.html) and get the error in this step: sc.pp.scrublet(adata, batch_key="sample") AttributeError: module 'scanpy.preprocessing' has no attribute 'scrublet'
Can you help with this? Thanks!
Best, B
sc.pp.scrublet(adata, batch_key="lib_prep")
--------------------------------------------------------------------------- AttributeError Traceback (most recent call last) /tmp/ipykernel_54187/3500521297.py in <module> ----> 1 sc.pp.scrublet(adata, batch_key="lib_prep") AttributeError: module 'scanpy.preprocessing' has no attribute 'scrublet'
----- anndata 0.10.3 scanpy 1.9.6 ----- PIL 10.1.0 backcall 0.2.0 cffi 1.14.6 cycler 0.12.1 cython_runtime NA dateutil 2.8.2 decorator 5.0.9 defusedxml 0.7.1 exceptiongroup 1.2.0 get_annotations NA google NA h5py 3.10.0 importlib_resources NA ipykernel 6.2.0 ipython_genutils 0.2.0 ipywidgets 7.6.3 jedi 0.18.0 joblib 1.3.2 kiwisolver 1.4.5 llvmlite 0.41.1 matplotlib 3.8.2 matplotlib_inline NA mpl_toolkits NA mudata 0.2.3 muon 0.1.6 natsort 8.4.0 numba 0.58.1 numpy 1.26.2 packaging 21.0 pandas 2.1.3 parso 0.8.2 patsy 0.5.3 pexpect 4.8.0 pickleshare 0.7.5 pkg_resources NA prompt_toolkit 3.0.19 ptyprocess 0.7.0 pycparser 2.20 pyexpat NA pygments 2.10.0 pynndescent 0.5.11 pyparsing 2.4.7 pytz 2023.3.post1 scipy 1.11.4 scrublet NA seaborn 0.12.2 session_info 1.0.0 setuptools 65.5.1 six 1.16.0 sklearn 1.3.2 statsmodels 0.14.0 storemagic NA threadpoolctl 3.2.0 torch 1.12.1+cu102 tornado 6.1 tqdm 4.66.1 traitlets 5.0.5 typing_extensions NA umap 0.5.5 wcwidth 0.2.5 yaml 6.0.1 zipp NA zmq 22.2.1 ----- IPython 7.26.0 jupyter_client 6.1.12 jupyter_core 4.7.1 notebook 6.4.3 ----- Python 3.9.0 (default, Oct 6 2020, 11:01:41) [GCC 4.8.5 20150623 (Red Hat 4.8.5-36)] Linux-3.10.0-1160.108.1.el7.x86_64-x86_64-with-glibc2.17 ----- Session information updated at 2024-04-23 14:43
The text was updated successfully, but these errors were encountered:
I think this is not a bug. You have to update to latest version of scanpy
Sorry, something went wrong.
@bingy007 please report back if you can reproduce this with the latest scanpy versions.
It works when I update the scanpy version from 1.9.8 to 1.10.1
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What happened?
Hi,
Thanks a lot for helping!
I was following this tutorial (https://scanpy.readthedocs.io/en/stable/tutorials/basics/clustering.html) and get the error in this step: sc.pp.scrublet(adata, batch_key="sample")
AttributeError: module 'scanpy.preprocessing' has no attribute 'scrublet'
Can you help with this? Thanks!
Best,
B
Minimal code sample
Error output
Versions
The text was updated successfully, but these errors were encountered: