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Hello Authors,
I tried running the nextflow pipleine on a single sample (WGS PCR free and another exome) after building the docker image
from the latest version 1.0.1. I ran into the following errors, which seems to be an issue with "multi-dimensional indexing on a pandas Series" not being supported in python3.10. Thus, docker image would need to be modified.
Elapsed time: 0:00:11 Calculating z scores
Traceback (most recent call last):
File "/opt/conda/envs/main/bin/strling-outliers.py", line 451, in <module>
main()
File "/opt/conda/envs/main/bin/strling-outliers.py", line 332, in main
z = z_score(sum_str_log_wide, mu_sd_estimates)
File "/opt/conda/envs/main/bin/strling-outliers.py", line 140, in z_score
return (x - df['mu'][:,np.newaxis])/df['sd'][:,np.newaxis]
File "/opt/conda/envs/main/lib/python3.10/site-packages/pandas/core/series.py", line 1033, in __getitem__
return self._get_with(key)
File "/opt/conda/envs/main/lib/python3.10/site-packages/pandas/core/series.py", line 1048, in _get_with
return self._get_values_tuple(key)
File "/opt/conda/envs/main/lib/python3.10/site-packages/pandas/core/series.py", line 1082, in _get_values_tuple
disallow_ndim_indexing(result)
File "/opt/conda/envs/main/lib/python3.10/site-packages/pandas/core/indexers/utils.py", line 343, in disallow_ndim_indexing
raise ValueError(
ValueError: Multi-dimensional indexing (e.g. `obj[:, None]`) is no longer supported. Convert to a numpy array before indexing instead.
Work dir:
/nfs/tx/in/STRling-nf-1.0.1/work/fb/44a007fe504136862345d22bf2e71b
Tip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run`
-- Check '.nextflow.log' file for details
Please let me know if you guys plan on modifying the docker image.
Thanks!
The text was updated successfully, but these errors were encountered:
Hello Authors,
I tried running the nextflow pipleine on a single sample (WGS PCR free and another exome) after building the docker image
from the latest version 1.0.1. I ran into the following errors, which seems to be an issue with "multi-dimensional indexing on a pandas Series" not being supported in python3.10. Thus, docker image would need to be modified.
Please let me know if you guys plan on modifying the docker image.
Thanks!
The text was updated successfully, but these errors were encountered: