confidence intervals are not being extracted properly for `brms` objects

IndrajeetPatil commented 4 years ago

This probably has to do with tibble 3.0.0:

> mod <-
   brms::brm(
     formula = count ~ Age + Base * Trt + (1 | patient),
     data = epilepsy,
     family = poisson(),
     prior = bprior1,
     silent = TRUE
   )
Compiling the C++ model
recompiling to avoid crashing R session
Start sampling

SAMPLING FOR MODEL 'e29937da96a16d9d734d942342cb9744' NOW (CHAIN 1).
Chain 1: 
Chain 1: Gradient evaluation took 0.001 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 10 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1: 
Chain 1: 
Chain 1: Iteration:    1 / 2000 [  0%]  (Warmup)
Chain 1: Iteration:  200 / 2000 [ 10%]  (Warmup)
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Chain 1: Iteration: 1800 / 2000 [ 90%]  (Sampling)
Chain 1: Iteration: 2000 / 2000 [100%]  (Sampling)
Chain 1: 
Chain 1:  Elapsed Time: 28.72 seconds (Warm-up)
Chain 1:                65.103 seconds (Sampling)
Chain 1:                93.823 seconds (Total)
Chain 1: 

SAMPLING FOR MODEL 'e29937da96a16d9d734d942342cb9744' NOW (CHAIN 2).
Chain 2: 
Chain 2: Gradient evaluation took 0 seconds
Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0 seconds.
Chain 2: Adjust your expectations accordingly!
Chain 2: 
Chain 2: 
Chain 2: Iteration:    1 / 2000 [  0%]  (Warmup)
Chain 2: Iteration:  200 / 2000 [ 10%]  (Warmup)
Chain 2: Iteration:  400 / 2000 [ 20%]  (Warmup)
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Chain 2: Iteration: 1001 / 2000 [ 50%]  (Sampling)
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Chain 2: Iteration: 1800 / 2000 [ 90%]  (Sampling)
Chain 2: Iteration: 2000 / 2000 [100%]  (Sampling)
Chain 2: 
Chain 2:  Elapsed Time: 9.605 seconds (Warm-up)
Chain 2:                6.948 seconds (Sampling)
Chain 2:                16.553 seconds (Total)
Chain 2: 

SAMPLING FOR MODEL 'e29937da96a16d9d734d942342cb9744' NOW (CHAIN 3).
Chain 3: 
Chain 3: Gradient evaluation took 0 seconds
Chain 3: 1000 transitions using 10 leapfrog steps per transition would take 0 seconds.
Chain 3: Adjust your expectations accordingly!
Chain 3: 
Chain 3: 
Chain 3: Iteration:    1 / 2000 [  0%]  (Warmup)
Chain 3: Iteration:  200 / 2000 [ 10%]  (Warmup)
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Chain 3: Iteration: 1001 / 2000 [ 50%]  (Sampling)
Chain 3: Iteration: 1200 / 2000 [ 60%]  (Sampling)
Chain 3: Iteration: 1400 / 2000 [ 70%]  (Sampling)
Chain 3: Iteration: 1600 / 2000 [ 80%]  (Sampling)
Chain 3: Iteration: 1800 / 2000 [ 90%]  (Sampling)
Chain 3: Iteration: 2000 / 2000 [100%]  (Sampling)
Chain 3: 
Chain 3:  Elapsed Time: 15.196 seconds (Warm-up)
Chain 3:                65.563 seconds (Sampling)
Chain 3:                80.759 seconds (Total)
Chain 3: 

SAMPLING FOR MODEL 'e29937da96a16d9d734d942342cb9744' NOW (CHAIN 4).
Chain 4: 
Chain 4: Gradient evaluation took 0 seconds
Chain 4: 1000 transitions using 10 leapfrog steps per transition would take 0 seconds.
Chain 4: Adjust your expectations accordingly!
Chain 4: 
Chain 4: 
Chain 4: Iteration:    1 / 2000 [  0%]  (Warmup)
Chain 4: Iteration:  200 / 2000 [ 10%]  (Warmup)
Chain 4: Iteration:  400 / 2000 [ 20%]  (Warmup)
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Chain 4: Iteration:  800 / 2000 [ 40%]  (Warmup)
Chain 4: Iteration: 1000 / 2000 [ 50%]  (Warmup)
Chain 4: Iteration: 1001 / 2000 [ 50%]  (Sampling)
Chain 4: Iteration: 1200 / 2000 [ 60%]  (Sampling)
Chain 4: Iteration: 1400 / 2000 [ 70%]  (Sampling)
Chain 4: Iteration: 1600 / 2000 [ 80%]  (Sampling)
Chain 4: Iteration: 1800 / 2000 [ 90%]  (Sampling)
Chain 4: Iteration: 2000 / 2000 [100%]  (Sampling)
Chain 4: 
Chain 4:  Elapsed Time: 8.622 seconds (Warm-up)
Chain 4:                5.549 seconds (Sampling)
Chain 4:                14.171 seconds (Total)
Chain 4: 
Warning messages:
1: There were 2000 transitions after warmup that exceeded the maximum treedepth. Increase max_treedepth above 10. See
http://mc-stan.org/misc/warnings.html#maximum-treedepth-exceeded 
2: There were 2 chains where the estimated Bayesian Fraction of Missing Information was low. See
http://mc-stan.org/misc/warnings.html#bfmi-low 
3: Examine the pairs() plot to diagnose sampling problems

4: The largest R-hat is 2.03, indicating chains have not mixed.
Running the chains for more iterations may help. See
http://mc-stan.org/misc/warnings.html#r-hat 
5: Bulk Effective Samples Size (ESS) is too low, indicating posterior means and medians may be unreliable.
Running the chains for more iterations may help. See
http://mc-stan.org/misc/warnings.html#bulk-ess 
6: Tail Effective Samples Size (ESS) is too low, indicating posterior variances and tail quantiles may be unreliable.
Running the chains for more iterations may help. See
http://mc-stan.org/misc/warnings.html#tail-ess

Instead of conf.low and conf.high for confidence intervals, now you get the following-

> broom.mixed::tidy(mod)
# A tibble: 6 x 8
  effect   component group   term            estimate std.error conf.low[,"2.5%"] [,"97.5%"] conf.high[,"2.5%"] [,"97.5%"]
  <chr>    <chr>     <chr>   <chr>              <dbl>     <dbl>             <dbl>      <dbl>              <dbl>      <dbl>
1 fixed    cond      NA      (Intercept)      0.557     0.352            -0.231       1.25             -0.231       1.25  
2 fixed    cond      NA      Age              0.0166    0.0118           -0.00919     0.0392           -0.00919     0.0392
3 fixed    cond      NA      Base             0.0250    0.00383           0.0191      0.0332            0.0191      0.0332
4 fixed    cond      NA      Trt1            -0.341     0.216            -0.782       0.121            -0.782       0.121 
5 fixed    cond      NA      Base:Trt1        0.00402   0.00614          -0.00845     0.0160           -0.00845     0.0160
6 ran_pars cond      patient sd__(Intercept)  0.445     0.208             0.0205      0.698             0.0205      0.698

paul-buerkner commented 4 years ago

It seems to work correctly for me with the latest dev versions of brms and broom.mixed.

IndrajeetPatil commented 4 years ago

What if you use the development version of tibble? I think that’s the source of this issue.

bbolker commented 4 years ago

@IndrajeetPatil you referred to tibble 3.0.0, but at least on the master branch it's still at version 2.99.99.9014 . Before I dig in, can you be more precise about the version you're using? (I don't see anything in the "Breaking changes" sections of the NEWS file that gives me any clues ...)

IndrajeetPatil commented 4 years ago

Sorry, should have been more precise. You are right that the current version is 2.99.99.9014, but it will be submitted to CRAN on the 18th of March as 3.0.0, so I was referring to it by that version.

At any rate, here is a full reprex with session information:

set.seed(123)
library(brms)
#> Loading required package: Rcpp
#> Loading 'brms' package (version 2.12.0). Useful instructions
#> can be found by typing help('brms'). A more detailed introduction
#> to the package is available through vignette('brms_overview').
#> 
#> Attaching package: 'brms'
#> The following object is masked from 'package:stats':
#> 
#>     ar
library(broom.mixed)
#> Registered S3 method overwritten by 'broom.mixed':
#>   method      from 
#>   tidy.gamlss broom
data("epilepsy")

mod <-
  brms::brm(
    formula = count ~ Age + Base * Trt + (1 | patient),
    data = epilepsy,
    family = poisson(),
    silent = TRUE
  )
#> Compiling the C++ model
#> Start sampling
#> 
#> SAMPLING FOR MODEL '3230147e4459b899d8278ea231f1d3bb' NOW (CHAIN 1).
#> Chain 1: 
#> Chain 1: Gradient evaluation took 0 seconds
#> Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 seconds.
#> Chain 1: Adjust your expectations accordingly!
#> Chain 1: 
#> Chain 1: 
#> Chain 1: Iteration:    1 / 2000 [  0%]  (Warmup)
#> Chain 1: Iteration:  200 / 2000 [ 10%]  (Warmup)
#> Chain 1: Iteration:  400 / 2000 [ 20%]  (Warmup)
#> Chain 1: Iteration:  600 / 2000 [ 30%]  (Warmup)
#> Chain 1: Iteration:  800 / 2000 [ 40%]  (Warmup)
#> Chain 1: Iteration: 1000 / 2000 [ 50%]  (Warmup)
#> Chain 1: Iteration: 1001 / 2000 [ 50%]  (Sampling)
#> Chain 1: Iteration: 1200 / 2000 [ 60%]  (Sampling)
#> Chain 1: Iteration: 1400 / 2000 [ 70%]  (Sampling)
#> Chain 1: Iteration: 1600 / 2000 [ 80%]  (Sampling)
#> Chain 1: Iteration: 1800 / 2000 [ 90%]  (Sampling)
#> Chain 1: Iteration: 2000 / 2000 [100%]  (Sampling)
#> Chain 1: 
#> Chain 1:  Elapsed Time: 13.172 seconds (Warm-up)
#> Chain 1:                5.13 seconds (Sampling)
#> Chain 1:                18.302 seconds (Total)
#> Chain 1: 
#> 
#> SAMPLING FOR MODEL '3230147e4459b899d8278ea231f1d3bb' NOW (CHAIN 2).
#> Chain 2: 
#> Chain 2: Gradient evaluation took 0 seconds
#> Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0 seconds.
#> Chain 2: Adjust your expectations accordingly!
#> Chain 2: 
#> Chain 2: 
#> Chain 2: Iteration:    1 / 2000 [  0%]  (Warmup)
#> Chain 2: Iteration:  200 / 2000 [ 10%]  (Warmup)
#> Chain 2: Iteration:  400 / 2000 [ 20%]  (Warmup)
#> Chain 2: Iteration:  600 / 2000 [ 30%]  (Warmup)
#> Chain 2: Iteration:  800 / 2000 [ 40%]  (Warmup)
#> Chain 2: Iteration: 1000 / 2000 [ 50%]  (Warmup)
#> Chain 2: Iteration: 1001 / 2000 [ 50%]  (Sampling)
#> Chain 2: Iteration: 1200 / 2000 [ 60%]  (Sampling)
#> Chain 2: Iteration: 1400 / 2000 [ 70%]  (Sampling)
#> Chain 2: Iteration: 1600 / 2000 [ 80%]  (Sampling)
#> Chain 2: Iteration: 1800 / 2000 [ 90%]  (Sampling)
#> Chain 2: Iteration: 2000 / 2000 [100%]  (Sampling)
#> Chain 2: 
#> Chain 2:  Elapsed Time: 15.301 seconds (Warm-up)
#> Chain 2:                67.226 seconds (Sampling)
#> Chain 2:                82.527 seconds (Total)
#> Chain 2: 
#> 
#> SAMPLING FOR MODEL '3230147e4459b899d8278ea231f1d3bb' NOW (CHAIN 3).
#> Chain 3: 
#> Chain 3: Gradient evaluation took 0 seconds
#> Chain 3: 1000 transitions using 10 leapfrog steps per transition would take 0 seconds.
#> Chain 3: Adjust your expectations accordingly!
#> Chain 3: 
#> Chain 3: 
#> Chain 3: Iteration:    1 / 2000 [  0%]  (Warmup)
#> Chain 3: Iteration:  200 / 2000 [ 10%]  (Warmup)
#> Chain 3: Iteration:  400 / 2000 [ 20%]  (Warmup)
#> Chain 3: Iteration:  600 / 2000 [ 30%]  (Warmup)
#> Chain 3: Iteration:  800 / 2000 [ 40%]  (Warmup)
#> Chain 3: Iteration: 1000 / 2000 [ 50%]  (Warmup)
#> Chain 3: Iteration: 1001 / 2000 [ 50%]  (Sampling)
#> Chain 3: Iteration: 1200 / 2000 [ 60%]  (Sampling)
#> Chain 3: Iteration: 1400 / 2000 [ 70%]  (Sampling)
#> Chain 3: Iteration: 1600 / 2000 [ 80%]  (Sampling)
#> Chain 3: Iteration: 1800 / 2000 [ 90%]  (Sampling)
#> Chain 3: Iteration: 2000 / 2000 [100%]  (Sampling)
#> Chain 3: 
#> Chain 3:  Elapsed Time: 10.545 seconds (Warm-up)
#> Chain 3:                5.95 seconds (Sampling)
#> Chain 3:                16.495 seconds (Total)
#> Chain 3: 
#> 
#> SAMPLING FOR MODEL '3230147e4459b899d8278ea231f1d3bb' NOW (CHAIN 4).
#> Chain 4: 
#> Chain 4: Gradient evaluation took 0 seconds
#> Chain 4: 1000 transitions using 10 leapfrog steps per transition would take 0 seconds.
#> Chain 4: Adjust your expectations accordingly!
#> Chain 4: 
#> Chain 4: 
#> Chain 4: Iteration:    1 / 2000 [  0%]  (Warmup)
#> Chain 4: Iteration:  200 / 2000 [ 10%]  (Warmup)
#> Chain 4: Iteration:  400 / 2000 [ 20%]  (Warmup)
#> Chain 4: Iteration:  600 / 2000 [ 30%]  (Warmup)
#> Chain 4: Iteration:  800 / 2000 [ 40%]  (Warmup)
#> Chain 4: Iteration: 1000 / 2000 [ 50%]  (Warmup)
#> Chain 4: Iteration: 1001 / 2000 [ 50%]  (Sampling)
#> Chain 4: Iteration: 1200 / 2000 [ 60%]  (Sampling)
#> Chain 4: Iteration: 1400 / 2000 [ 70%]  (Sampling)
#> Chain 4: Iteration: 1600 / 2000 [ 80%]  (Sampling)
#> Chain 4: Iteration: 1800 / 2000 [ 90%]  (Sampling)
#> Chain 4: Iteration: 2000 / 2000 [100%]  (Sampling)
#> Chain 4: 
#> Chain 4:  Elapsed Time: 9.563 seconds (Warm-up)
#> Chain 4:                8.124 seconds (Sampling)
#> Chain 4:                17.687 seconds (Total)
#> Chain 4:
#> Warning: There were 1000 transitions after warmup that exceeded the maximum treedepth. Increase max_treedepth above 10. See
#> http://mc-stan.org/misc/warnings.html#maximum-treedepth-exceeded
#> Warning: There were 1 chains where the estimated Bayesian Fraction of Missing Information was low. See
#> http://mc-stan.org/misc/warnings.html#bfmi-low
#> Warning: Examine the pairs() plot to diagnose sampling problems
#> Warning: The largest R-hat is 1.44, indicating chains have not mixed.
#> Running the chains for more iterations may help. See
#> http://mc-stan.org/misc/warnings.html#r-hat
#> Warning: Bulk Effective Samples Size (ESS) is too low, indicating posterior means and medians may be unreliable.
#> Running the chains for more iterations may help. See
#> http://mc-stan.org/misc/warnings.html#bulk-ess
#> Warning: Tail Effective Samples Size (ESS) is too low, indicating posterior variances and tail quantiles may be unreliable.
#> Running the chains for more iterations may help. See
#> http://mc-stan.org/misc/warnings.html#tail-ess

broom.mixed::tidy(mod, conf.int = TRUE)
#> # A tibble: 6 x 8
#>   effect component group term  estimate std.error conf.low[,"2.5%~ [,"97.5%"]
#>   <chr>  <chr>     <chr> <chr>    <dbl>     <dbl>            <dbl>      <dbl>
#> 1 fixed  cond      <NA>  (Int~  5.37e-1   0.404            -0.304      1.31  
#> 2 fixed  cond      <NA>  Age    1.37e-2   0.0131           -0.0107     0.0408
#> 3 fixed  cond      <NA>  Base   2.81e-2   0.00502           0.0186     0.0368
#> 4 fixed  cond      <NA>  Trt1  -2.64e-1   0.241            -0.781      0.190 
#> 5 fixed  cond      <NA>  Base~  9.00e-5   0.00611          -0.0103     0.0128
#> 6 ran_p~ cond      pati~ sd__~  5.59e-1   0.101             0.292      0.717 
#> # ... with 2 more variables: conf.high[,"2.5%"] <dbl>, [,"97.5%"] <dbl>

^{Created on 2020-03-08 by the reprex package (v0.3.0)}

Session info

``` r devtools::session_info() #> - Session info --------------------------------------------------------------- #> setting value #> version R Under development (unstable) (2020-02-28 r77874) #> os Windows 10 x64 #> system x86_64, mingw32 #> ui RTerm #> language (EN) #> collate English_United States.1252 #> ctype English_United States.1252 #> tz Europe/Berlin #> date 2020-03-08 #> #> - Packages ------------------------------------------------------------------- #> ! package * version date lib #> abind 1.4-5 2016-07-21 [1] #> assertthat 0.2.1 2019-03-21 [1] #> backports 1.1.5 2019-10-02 [1] #> base64enc 0.1-3 2015-07-28 [1] #> bayesplot 1.7.1 2019-12-01 [1] #> bridgesampling 1.0-0 2020-02-26 [1] #> brms * 2.12.0 2020-02-23 [1] #> Brobdingnag 1.2-6 2018-08-13 [1] #> broom 0.5.3.9000 2020-03-01 [1] #> broom.mixed * 0.2.4 2019-02-21 [1] #> callr 3.4.2 2020-02-12 [1] #> cli 2.0.2 2020-02-28 [1] #> coda 0.19-3 2019-07-05 [1] #> codetools 0.2-16 2018-12-24 [2] #> colorspace 1.4-1 2019-03-18 [1] #> colourpicker 1.0 2017-09-27 [1] #> crayon 1.3.4 2017-09-16 [1] #> crosstalk 1.0.0 2016-12-21 [1] #> desc 1.2.0 2018-05-01 [1] #> devtools 2.2.2 2020-02-17 [1] #> digest 0.6.25 2020-02-23 [1] #> dplyr 0.8.5 2020-03-07 [1] #> DT 0.12 2020-02-05 [1] #> dygraphs 1.1.1.6 2018-07-11 [1] #> ellipsis 0.3.0 2019-09-20 [1] #> evaluate 0.14 2019-05-28 [1] #> fansi 0.4.1 2020-01-08 [1] #> fastmap 1.0.1 2019-10-08 [1] #> fs 1.3.1 2019-05-06 [1] #> generics 0.0.2 2018-11-29 [1] #> ggplot2 3.3.0 2020-03-05 [1] #> ggridges 0.5.2 2020-01-12 [1] #> glue 1.3.1 2019-03-12 [1] #> gridExtra 2.3 2017-09-09 [1] #> gtable 0.3.0 2019-03-25 [1] #> gtools 3.8.1 2018-06-26 [1] #> highr 0.8 2019-03-20 [1] #> htmltools 0.4.0 2019-10-04 [1] #> htmlwidgets 1.5.1 2019-10-08 [1] #> httpuv 1.5.2 2019-09-11 [1] #> igraph 1.2.4.2 2019-11-27 [1] #> inline 0.3.15 2018-05-18 [1] #> knitr 1.28 2020-02-06 [1] #> later 1.0.0 2019-10-04 [1] #> lattice 0.20-40 2020-02-19 [2] #> lifecycle 0.2.0 2020-03-06 [1] #> loo 2.2.0 2019-12-19 [1] #> magrittr 1.5 2014-11-22 [1] #> markdown 1.1 2019-08-07 [1] #> Matrix 1.2-18 2019-11-27 [2] #> matrixStats 0.55.0 2019-09-07 [1] #> memoise 1.1.0 2017-04-21 [1] #> mime 0.9 2020-02-04 [1] #> miniUI 0.1.1.1 2018-05-18 [1] #> munsell 0.5.0 2018-06-12 [1] #> mvtnorm 1.1-0 2020-02-24 [1] #> nlme 3.1-144 2020-02-06 [2] #> pillar 1.4.3 2019-12-20 [1] #> pkgbuild 1.0.6 2019-10-09 [1] #> pkgconfig 2.0.3 2019-09-22 [1] #> pkgload 1.0.2 2018-10-29 [1] #> plyr 1.8.6 2020-03-03 [1] #> prettyunits 1.1.1 2020-01-24 [1] #> processx 3.4.2 2020-02-09 [1] #> promises 1.1.0 2019-10-04 [1] #> ps 1.3.2 2020-02-13 [1] #> purrr 0.3.3 2019-10-18 [1] #> R6 2.4.1 2019-11-12 [1] #> Rcpp * 1.0.3 2019-11-08 [1] #> remotes 2.1.1 2020-02-15 [1] #> reshape2 1.4.3 2017-12-11 [1] #> rlang 0.4.5 2020-03-03 [1] #> rmarkdown 2.1 2020-01-20 [1] #> rprojroot 1.3-2 2018-01-03 [1] #> rsconnect 0.8.16 2019-12-13 [1] #> rstan 2.19.3 2020-02-11 [1] #> rstantools 2.0.0 2019-09-15 [1] #> scales 1.1.0 2019-11-18 [1] #> sessioninfo 1.1.1 2018-11-05 [1] #> shiny 1.4.0 2019-10-10 [1] #> shinyjs 1.1 2020-01-13 [1] #> shinystan 2.5.0 2018-05-01 [1] #> shinythemes 1.1.2 2018-11-06 [1] #> StanHeaders 2.21.0-1 2020-01-19 [1] #> stringi 1.4.6 2020-02-17 [1] #> stringr 1.4.0 2019-02-10 [1] #> testthat 2.3.2 2020-03-02 [1] #> threejs 0.3.3 2020-01-21 [1] #> tibble 2.99.99.9014 2020-03-03 [1] #> tidyr 1.0.2 2020-01-24 [1] #> tidyselect 1.0.0 2020-01-27 [1] #> D TMB 1.7.16 2020-01-15 [1] #> usethis 1.5.1.9000 2020-02-29 [1] #> utf8 1.1.4 2018-05-24 [1] #> vctrs 0.2.99.9006 2020-03-03 [1] #> withr 2.1.2 2018-03-15 [1] #> xfun 0.12 2020-01-13 [1] #> xtable 1.8-4 2019-04-21 [1] #> xts 0.12-0 2020-01-19 [1] #> yaml 2.2.1 2020-02-01 [1] #> zoo 1.8-7 2020-01-10 [1] #> source #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> Github (tidymodels/broom@3c922d5) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> Github (r-lib/rlang@6592336) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> Github (tidyverse/tibble@4a7f01f) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> Github (r-lib/usethis@2a3d134) #> CRAN (R 4.0.0) #> Github (r-lib/vctrs@1622723) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> CRAN (R 4.0.0) #> #> [1] C:/Users/inp099/Documents/R/win-library/4.0 #> [2] C:/Program Files/R/R-devel/library #> #> D -- DLL MD5 mismatch, broken installation. ```

IndrajeetPatil commented 4 years ago

Also, as I said in my initial comment, the tibble thing is just my guess.

Another big difference is that I am working with R-devel, not sure if that might have something to do with this.

bbolker / broom.mixed

confidence intervals are not being extracted properly for `brms` objects #87