Closed xiaojuanjuan94 closed 2 weeks ago
It seems that your issue is similar to the one addressed in a previous response. I kindly suggest referring to that particular reply for further information and guidance. Here is the link to the relevant response: #1
after groupby=start the column name is end_y not end, which may not be dropped. after groupby=end the column name is start_y not start, which may not be dropped. can you fix this if my interpretation is correct?
My solution would be:
if( groupby=="start" ):
sums = sums.drop(columns=['start', 'end_x', 'end_y'])
else:
sums = sums.drop(columns=['start_x','start_y','end'])
#sums = sums.drop(columns=['start', 'end'])
source activate scasl python main.py -y configs/srr.yaml
Errors reported as follows:
=============Normalization & Imputation============= reading data from process_result/20240416225626/filtered_matrix... Traceback (most recent call last): File "/share/home/lijuan/software/miniconda3/envs/scasl/SCASL-1.0.0/main.py", line 10, in
scasl.fit()
File "/share/home/lijuan/software/miniconda3/envs/scasl/SCASL-1.0.0/scasl/splice.py", line 95, in fit
run_cluster(self.cfg)
File "/share/home/lijuan/software/miniconda3/envs/scasl/SCASL-1.0.0/scasl/splice.py", line 66, in run_cluster
df_final, mat = normalize(filter_path, cfg.impute.num_iteration, cfg.impute.knn)
File "/share/home/lijuan/software/miniconda3/envs/scasl/SCASL-1.0.0/scasl/normalize.py", line 92, in normalize
dfs = norm_only(df_path, 'start')
File "/share/home/lijuan/software/miniconda3/envs/scasl/SCASL-1.0.0/scasl/normalize.py", line 40, in norm_only
df_prob = to_prob(df, groupby=groupby)
File "/share/home/lijuan/software/miniconda3/envs/scasl/SCASL-1.0.0/scasl/normalize.py", line 22, in to_prob
sums = sums.drop(columns=['start', 'end'])
File "/share/home/lijuan/software/miniconda3/envs/scasl/lib/python3.9/site-packages/pandas/core/frame.py", line 5568, in drop
return super().drop(
File "/share/home/lijuan/software/miniconda3/envs/scasl/lib/python3.9/site-packages/pandas/core/generic.py", line 4785, in drop
obj = obj._drop_axis(labels, axis, level=level, errors=errors)
File "/share/home/lijuan/software/miniconda3/envs/scasl/lib/python3.9/site-packages/pandas/core/generic.py", line 4827, in _drop_axis
new_axis = axis.drop(labels, errors=errors)
File "/share/home/lijuan/software/miniconda3/envs/scasl/lib/python3.9/site-packages/pandas/core/indexes/base.py", line 7070, in drop
raise KeyError(f"{labels[mask].tolist()} not found in axis")
KeyError: "['end'] not found in axis"