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Thanks! This stuff worried me when I saw your issue. But as you say R does some magic and still gets the intercept. I've made a PR to fix this and will merge once green.
in predictCyclopsType() there is the line:
intercept <- coefficients$betas[coefficients$covariateId%in%'(Intercept)']
I believe there is a missing 's' and this should be
intercept <- coefficients$betas[coefficients$covariateIds%in%'(Intercept)']
I think this will not cause issues because R lets you be lazy with the names but we should fix this anyway in case things change.
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