2022-02-16 11:49:16,582 glint INFO      methylation_data.py:156        Loading file bval_minfidata.txt...
2022-02-16 11:49:16,597 glint INFO      methylation_data.py:680        Checking for missing values in the data file...
2022-02-16 11:49:16,598 glint INFO      methylation_data.py:227        Validating covariates file...
2022-02-16 11:49:16,598 glint INFO      methylation_data.py:156        Loading file covariates_minfidata.txt...
2022-02-16 11:49:16,602 glint INFO      methylation_data.py:229        New covariates were found: age, sex.
2022-02-16 11:49:16,629 glint INFO      epistructure.py:19             Running EPISTRUCTURE...
2022-02-16 11:49:16,630 glint INFO      epistructure.py:20             Removing non-informative sites...
2022-02-16 11:49:16,630 glint INFO      methylation_data.py:368        Including sites...
2022-02-16 11:49:17,013 glint INFO      methylation_data.py:371        Include sites: 4913 CpGs from the reference list of 4913 CpGs will be included...
2022-02-16 11:49:17,013 glint WARNING   methylation_data.py:317        Found no sites to exclude.
2022-02-16 11:49:17,013 glint INFO      methylation_data.py:622        Using covariates age, sex.
2022-02-16 11:49:17,014 glint INFO      epistructure.py:25             Regressing out covariates...
2022-02-16 11:49:18,433 glint INFO      epistructure.py:30             Running PCA...
2022-02-16 11:49:18,437 glint INFO      epistructure.py:39             The first 1 PCs were saved to glint_results_minfidata.epistructure.pcs.txt.
2022-02-16 11:49:18,438 glint INFO      methylation_data.py:306        Added covariates epi1.
