mkdir -p failed for path /.config/matplotlib: [Errno 13] Permission denied: '/.config' Matplotlib created a temporary cache directory at /tmp/matplotlib-zf844v8j because there was an issue with the default path (/.config/matplotlib); it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing. /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) /usr/local/lib/python3.12/site-packages/sklearn/base.py:1403: ConvergenceWarning: Number of distinct clusters (10) found smaller than n_clusters (12). Possibly due to duplicate points in X. return fit_method(estimator, *args, **kwargs) Traceback (most recent call last): File "/usr/local/bin/call_cnv.py", line 2215, in main() File "/usr/local/bin/call_cnv.py", line 2117, in main ss_result, ss_probes, ss_clones, ss_metrics = call_cnv_single_sample( ^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/local/bin/call_cnv.py", line 1668, in call_cnv_single_sample result_df, clone_summary, metrics = run_germline_decomp( ^^^^^^^^^^^^^^^^^^^^ File "/usr/local/bin/clonal_decomp.py", line 1756, in run_germline_decomp fit_result = fit_diploid_logr(df, dipLogR_range=germ_dipLogR_range, ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/local/bin/clonal_decomp.py", line 407, in fit_diploid_logr "se": horiz_se, ^^^^^^^^ UnboundLocalError: cannot access local variable 'horiz_se' where it is not associated with a value