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--- re-building ‘introduction-to-vimp.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
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vimp version 2.2.4: Perform Inference on Algorithm-Agnostic Variable Importance
Loading required package: nnls
Loading required package: gam
Loading required package: splines
Loading required package: foreach
Loaded gam 1.20

Super Learner
Version: 2.0-28
Package created on 2021-05-04

Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in vim(Y = y, X = X, indx = geog_indx + i, run_regression = TRUE,  :
  Original estimate < 0; returning zero.
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in vim(Y = y, X = X, indx = geog_indx + i, run_regression = TRUE,  :
  Original estimate < 0; returning zero.
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in vim(Y = y, X = X, indx = geog_indx + i, run_regression = TRUE,  :
  Original estimate < 0; returning zero.
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in vim(Y = y, X = X, indx = geog_indx + i, run_regression = TRUE,  :
  Original estimate < 0; returning zero.
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in vim(Y = y, X = X, indx = geog_indx + i, run_regression = TRUE,  :
  Original estimate < 0; returning zero.
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in vim(Y = y, X = X, indx = geog_indx + i, run_regression = TRUE,  :
  Original estimate < 0; returning zero.
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in vim(Y = y, X = X, indx = geog_indx + i, run_regression = TRUE,  :
  Original estimate < 0; returning zero.
Warning in predict.lm(fit, newdata = newX, type = "response") :
  prediction from a rank-deficient fit may be misleading
Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in predict.lm(fit, newdata = newX, type = "response") :
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Warning in cv_vim(type = "r_squared", Y = Y, X = X, cross_fitted_f1 = cross_fitted_f1,  :
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--- re-building ‘precomputed-regressions.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
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vimp version 2.2.4: Perform Inference on Algorithm-Agnostic Variable Importance
Loading required package: nnls
Loading required package: gam
Loading required package: splines
Loading required package: foreach
Loaded gam 1.20

Super Learner
Version: 2.0-28
Package created on 2021-05-04

Warning in vim(Y = y, f1 = full_fit, f2 = red_fit, indx = i + geog_indx,  :
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Loading required namespace: ranger
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--- re-building ‘types-of-vims.Rmd’ using rmarkdown
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Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type ==  :
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Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type ==  :
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Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type ==  :
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Warning in predict.lm(object, newdata, se.fit, scale = 1, type = if (type ==  :
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Warning in sp_vim(Y = y, X = X, type = "auc", SL.library = learners, na.rm = TRUE,  :
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