kuanrongchan
commented
4 months ago Hi:
Mind sending us the dataset for us to analyse the problem?
Best regards Kuan Rong
Chan Kuan Rong, PhD | Senior Principal Research Scientist, Emerging Infectious Diseases | Duke-NUS Medical School | Tel: 65 90058277 | 8 College Road, Singapore 169857 | kuanrongchan.comhttp://kuanrongchan.com
From: esiefker @.> Sent: Friday, March 8, 2024 1:28 AM To: kuanrongchan/STAGES @.> Cc: Subscribed @.***> Subject: [kuanrongchan/STAGES] ValueError on Preprocessing tab (Issue #19)
- External Email -After uploading data and receiving "no errors detected", Preprocessing fails with this error
File "/home/adminuser/venv/lib/python3.9/site-packages/streamlit/runtime/scriptrunner/script_runner.py", line 535, in _run_script exec(code, module.dict) File "/mount/src/stages/pages/02_Pre-processing.py", line 97, in adata = AnnData(expr_obj, obs = meta_obj, dtype='float32') # expr data should be genes in cols, subjects in rows, obs should be the same File "/home/adminuser/venv/lib/python3.9/site-packages/anndata/_core/anndata.py", line 362, in init self._init_as_actual( File "/home/adminuser/venv/lib/python3.9/site-packages/anndata/_core/anndata.py", line 545, in _init_as_actual self._obs = _gen_dataframe( File "/usr/local/lib/python3.9/functools.py", line 888, in wrapper return dispatch(args[0].class)(*args, **kw) File "/home/adminuser/venv/lib/python3.9/site-packages/anndata/_core/anndata.py", line 180, in _gen_dataframe_df raise _mk_df_error(source, attr, length, len(anno))
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After uploading data and receiving "no errors detected", Preprocessing fails with this error
File "/home/adminuser/venv/lib/python3.9/site-packages/streamlit/runtime/scriptrunner/script_runner.py", line 535, in _run_script exec(code, module.dict) File "/mount/src/stages/pages/02_Pre-processing.py", line 97, in
adata = AnnData(expr_obj, obs = meta_obj, dtype='float32') # expr data should be genes in cols, subjects in rows, obs should be the same
File "/home/adminuser/venv/lib/python3.9/site-packages/anndata/_core/anndata.py", line 362, in init
self._init_as_actual(
File "/home/adminuser/venv/lib/python3.9/site-packages/anndata/_core/anndata.py", line 545, in _init_as_actual
self._obs = _gen_dataframe(
File "/usr/local/lib/python3.9/functools.py", line 888, in wrapper
return dispatch(args[0].class)(*args, **kw)
File "/home/adminuser/venv/lib/python3.9/site-packages/anndata/_core/anndata.py", line 180, in _gen_dataframe_df
raise _mk_df_error(source, attr, length, len(anno))