Novartis Experiments failing when calling calc_pdx_metrics.py on AWS #462
Description
This ran successfully last time around, but now has failed twice in a row when running on the AWS EC2 instance. Currently looking into this.
Error Message:
Traceback (most recent call last):
File "/app/calc_pdx_metrics.py", line 418, in <module>
main()
File "/app/calc_pdx_metrics.py", line 323, in main
singles, combos = get_drug_stats(tab)
File "/app/calc_pdx_metrics.py", line 390, in get_drug_stats
lmm_res = lmm(comb.time, comb.volume, comb.treatment, d)
File "/app/calc_pdx_metrics.py", line 289, in lmm
fit = model.fit()
File "/usr/local/lib/python3.10/site-packages/statsmodels/regression/mixed_linear_model.py", line 2257, in fit
pcov = np.linalg.inv(-hess)
File "<__array_function__ internals>", line 180, in inv
File "/usr/local/lib/python3.10/site-packages/numpy/linalg/linalg.py", line 552, in inv
ainv = _umath_linalg.inv(a, signature=signature, extobj=extobj)
File "/usr/local/lib/python3.10/site-packages/numpy/linalg/linalg.py", line 89, in _raise_linalgerror_singular
raise LinAlgError("Singular matrix")
numpy.linalg.LinAlgError: Singular matrix