kohcl17
commented
3 months ago Hi Anne,
Could I just check if you still have this issue?
If so, do you mind checking if your first column are your gene names and the rest of the dataset are numeric values?
Best regards, Clara
Dear STAGES Team,
I've tried to run my log2 RNA Seq Data set and repeatedly ran into a preprocessing error as listed below. Could you help me run this data set?
Best, Anne
TypeError: This app has encountered an error. The original error message is redacted to prevent data leaks. Full error details have been recorded in the logs (if you're on Streamlit Cloud, click on 'Manage app' in the lower right of your app).
File "/home/adminuser/venv/lib/python3.9/site-packages/streamlit/runtime/scriptrunner/script_runner.py", line 589, in _run_script exec(code, module.dict) File "/mount/src/stages/pages/02_Pre-processing.py", line 92, in
exprdict = {k:v.groupby(v.index).mean() for k,v in exprdict.items()}
File "/mount/src/stages/pages/02_Pre-processing.py", line 92, in
exprdict = {k:v.groupby(v.index).mean() for k,v in exprdict.items()}
File "/home/adminuser/venv/lib/python3.9/site-packages/pandas/core/groupby/groupby.py", line 2452, in mean
result = self._cython_agg_general(
File "/home/adminuser/venv/lib/python3.9/site-packages/pandas/core/groupby/groupby.py", line 1998, in _cython_agg_general
new_mgr = data.grouped_reduce(array_func)
File "/home/adminuser/venv/lib/python3.9/site-packages/pandas/core/internals/managers.py", line 1469, in grouped_reduce
applied = sb.apply(func)
File "/home/adminuser/venv/lib/python3.9/site-packages/pandas/core/internals/blocks.py", line 393, in apply
result = func(self.values, **kwargs)
File "/home/adminuser/venv/lib/python3.9/site-packages/pandas/core/groupby/groupby.py", line 1995, in array_func
result = self._agg_py_fallback(how, values, ndim=data.ndim, alt=alt)
File "/home/adminuser/venv/lib/python3.9/site-packages/pandas/core/groupby/groupby.py", line 1946, in _agg_py_fallback
raise type(err)(msg) from err