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Using hbpmip/python-tsne:0.3.3 with the following parameters against sample data

PARAM_covariables=""
PARAM_grouping=""
PARAM_meta="{"minimentalstate":{"description":"The Mini–Mental State Examination (MMSE) or Folstein test is a 30-point questionnaire that is used extensively in clinical and research settings to measure cognitive impairment. It is commonly used to screen for dementia.","methodology":"mip-cde","label":"MMSE Total scores","minValue":0,"code":"minimentalstate","maxValue":30.0,"type":"integer"}}"
PARAM_query="SELECT "minimentalstate" FROM cde_features_a WHERE "minimentalstate" IS NOT NULL"
PARAM_variables="minimentalstate"

atsne: perplexity: 30, iters: 1000, input: /tmp/tmpoax_tmpj, output: /tmp/tmptfdm4ja6, dims: 0x0
end atsne
/usr/local/lib/python3.6/site-packages/scipy/stats/stats.py:2241: RuntimeWarning: Mean of empty slice.
mns = a.mean(axis=axis)
/usr/local/lib/python3.6/site-packages/numpy/core/_methods.py:135: RuntimeWarning: Degrees of freedom <= 0 for slice
keepdims=keepdims)
Traceback (most recent call last):
File "/tsne.py", line 278, in
main()
File "/tsne.py", line 99, in main
chart = generate_scatterchart(output, indep_vars, labels, perplexity, theta, iterations)
File "/tsne.py", line 238, in generate_scatterchart
'series': get_chart_series(data, labels)
File "/tsne.py", line 266, in get_chart_series
sub_data = data[mask[:, 0], :]
IndexError: boolean index did not match indexed array along dimension 0; dimension is 0 but corresponding boolean dimension is 757