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tidy(lm_fit) in tidymodels get started example throws an error , no tidy method for objects of class lm #147

Closed baletercero closed 4 years ago

baletercero commented 4 years ago

I was trying the Build Model tutorial on tidymodels.org new website here (https://www.tidymodels.org/start/models/) and when I got to display the tidy model output I recevied an error : Error: No tidy method for objects of class _lm . I've used tidy from broom before so I'm frustrated I can't get it to work, thanks for any help you can provide!

Here's a reprex .

library(tidymodels)  # for the parsnip package, along with the rest of tidymodels
#> -- Attaching packages ---------------------------------------------------------------------------------------------------------------------------------------------- tidymodels 0.1.0 --
#> v broom     0.5.6      v recipes   0.1.10
#> v dials     0.0.6      v rsample   0.0.6 
#> v dplyr     0.8.5      v tibble    3.0.1 
#> v ggplot2   3.3.0      v tune      0.1.0 
#> v infer     0.5.1      v workflows 0.1.1 
#> v parsnip   0.1.0      v yardstick 0.0.6 
#> v purrr     0.3.4
#> -- Conflicts ------------------------------------------------------------------------------------------------------------------------------------------------- tidymodels_conflicts() --
#> x purrr::discard()  masks scales::discard()
#> x dplyr::filter()   masks stats::filter()
#> x dplyr::lag()      masks stats::lag()
#> x ggplot2::margin() masks dials::margin()
#> x recipes::step()   masks stats::step()

# Helper packages
library(readr)       # for importing data
#> 
#> Attaching package: 'readr'
#> The following object is masked from 'package:yardstick':
#> 
#>     spec
#> The following object is masked from 'package:scales':
#> 
#>     col_factor

urchins <-
  # Data were assembled for a tutorial 
  # at https://www.flutterbys.com.au/stats/tut/tut7.5a.html
  read_csv("https://tidymodels.org/start/models/urchins.csv") %>% 
  # Change the names to be a little more verbose
  setNames(c("food_regime", "initial_volume", "width")) %>% 
  # Factors are very helpful for modeling, so we convert one column
  mutate(food_regime = factor(food_regime, levels = c("Initial", "Low", "High")))
#> Parsed with column specification:
#> cols(
#>   TREAT = col_character(),
#>   IV = col_double(),
#>   SUTW = col_double()
#> )

lm_mod <- 
  linear_reg() %>% 
  set_engine("lm") %>% set_mode('regression')

lm_fit <- 
  lm_mod %>% 
  fit(width ~ initial_volume * food_regime, data = urchins)
lm_fit
#> parsnip model object
#> 
#> Fit time:  0ms 
#> 
#> Call:
#> stats::lm(formula = formula, data = data)
#> 
#> Coefficients:
#>                    (Intercept)                  initial_volume  
#>                      0.0331216                       0.0015546  
#>                 food_regimeLow                 food_regimeHigh  
#>                      0.0197824                       0.0214111  
#>  initial_volume:food_regimeLow  initial_volume:food_regimeHigh  
#>                     -0.0012594                       0.0005254

## for a summary , summary() can work but better is tidy()
summary(lm_fit)
#>         Length Class      Mode   
#> lvl      0     -none-     NULL   
#> spec     5     linear_reg list   
#> fit     13     lm         list   
#> preproc  1     -none-     list   
#> elapsed  5     proc_time  numeric
**tidy(lm_fit)
#> Error: No tidy method for objects of class _lm**

Created on 2020-04-28 by the reprex package (v0.3.0)

Session info
devtools::session_info()
#> - Session info ---------------------------------------------------------------
#>  setting  value                       
#>  version  R version 4.0.0 (2020-04-24)
#>  os       Windows 10 x64              
#>  system   x86_64, mingw32             
#>  ui       RTerm                       
#>  language (EN)                        
#>  collate  English_United States.1252  
#>  ctype    English_United States.1252  
#>  tz       America/Chicago             
#>  date     2020-04-28                  
#> 
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topepo commented 4 years ago

The problem is with parsnip and S3 registration for tidy methods. It was overlooked in previous versions of R.

Until a new CRAN release, you can use

devtools::install_dev("parsnip")

to get the new version.