Version 2.0.0 broke autoplot()

[ghuiber]

The example shown here no longer works:

> library(ggfortify)
> library(survival)
> fit <- survfit(Surv(time, status) ~ sex, data = lung)
> autoplot(fit)
Error in get(x, envir = this, inherits = inh)(this, ...) : 
  unused argument (TRUE)

This is with R 3.2.3 and ggplot2 updated today.

[yutannihilation]

I think you should update ggfortify to v0.1.0, which is compatible with ggplot2 v2.0.0 :)

[ghuiber]

That is the version I have. See below:

> library(ggfortify)
> library(survival)
> fit <- survfit(Surv(time, status) ~ sex, data = lung)
> autoplot(fit)
Error in get(x, envir = this, inherits = inh)(this, ...) : 
  unused argument (TRUE)
> print(sessionInfo())
R version 3.2.3 (2015-12-10)
Platform: x86_64-apple-darwin13.4.0 (64-bit)
Running under: OS X 10.10.5 (Yosemite)

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods  
[7] base     

other attached packages:
[1] survival_2.38-3 ggfortify_0.1.0 ggplot2_2.0.0  
[4] proto_0.3-10    MASS_7.3-45    

loaded via a namespace (and not attached):
 [1] Rcpp_0.12.2      tidyr_0.3.1      dplyr_0.4.3     
 [4] assertthat_0.1   grid_3.2.3       plyr_1.8.3      
 [7] R6_2.1.1         gtable_0.1.2     DBI_0.3.1.9008  
[10] magrittr_1.5     scales_0.3.0     splines_3.2.3   
[13] tools_3.2.3      munsell_0.4.2    parallel_3.2.3  
[16] colorspace_1.2-6 gridExtra_2.0.0 

[yutannihilation]

@ghuiber
Sorry for my misunderstanding. I did reproduce this error. It may be better to report the issue on ggfortify's repo.

The error seems to occur here: https://github.com/hadley/ggplot2/blob/d36e9193479ad43aac0842c07582afa3dd1a538a/R/layer.r#L58

[ghuiber]

I did install_github() on both ggplot2 and ggfortify after @hadley closed this issue; autoplot() works again. I expect the CRAN versions will catch up soon enough.

[yutannihilation]

Hmm... I guess now you cannot reproduce this any more even if you use the CRAN versions. I can't.
Something may be wrong with some package in the dependency chain.

Anyway, it's good that the issue has been fixed! 👍

[sciatro]

I seem to be getting this error despite using v2 and v0.1. Here's the reproduction & session info:

> library(survival)
> library(ggfortify)
Loading required package: proto
Loading required package: ggplot2
> autoplot(survfit(Surv(time, status) ~ sex, data = lung))
Error in get(x, envir = this, inherits = inh)(this, ...) : 
  unused argument (TRUE)
> sessionInfo()
R version 3.2.3 (2015-12-10)
Platform: x86_64-apple-darwin13.4.0 (64-bit)
Running under: OS X 10.9.5 (Mavericks)

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] ggfortify_0.1.0 ggplot2_2.0.0   proto_0.3-10    survival_2.38-3

loaded via a namespace (and not attached):
 [1] Rcpp_0.12.1      tidyr_0.3.1      dplyr_0.4.3      assertthat_0.1  
 [5] grid_3.2.3       plyr_1.8.3       R6_2.1.1         gtable_0.1.2    
 [9] DBI_0.3.1        magrittr_1.5     scales_0.3.0     splines_3.2.3   
[13] tools_3.2.3      munsell_0.4.2    parallel_3.2.3   colorspace_1.2-6
[17] gridExtra_2.0.0