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clauswilke / colorblindr

An R package to simulate colorblindness on R figures.
MIT License
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Error in installing - cannot find desaturate from colorspace #11

Closed achamess closed 5 years ago

achamess commented 5 years ago

Hi. I previously had colorblindr working on my R studio setup, but not longer. So I reinstalled. This is what I'm getting.

I downloaded a fresh cowplot and colorspace. I have R 3.5 on Mac OS and R Studio Version 1.1.463 on MacOS 13.3

─  preparing ‘colorblindr’:
✔  checking DESCRIPTION meta-information ...
─  checking for LF line-endings in source and make files and shell scripts
─  checking for empty or unneeded directories
─  building ‘colorblindr_0.1.0.tar.gz’

* installing *source* package ‘colorblindr’ ...
** R
** inst
** byte-compile and prepare package for lazy loading
Error : object ‘desaturate’ is not exported by 'namespace:colorspace'
ERROR: lazy loading failed for package ‘colorblindr’
* removing ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library/colorblindr’
Error in i.p(...) : 
  (converted from warning) installation of package ‘/var/folders/gx/mfdx8g856wvdtp0dw7k8h2s80000gn/T//Rtmps2mG9T/filec65216f0c535/colorblindr_0.1.0.tar.gz’ had non-zero exit status
clauswilke commented 5 years ago

Please make sure you install colorspace as described in the README: https://github.com/clauswilke/colorblindr/blob/master/README.md

achamess commented 5 years ago

Hi. Thanks for the reply. I looked again at the README. This is how I did it, but to make sure, I just now removed the old instances of cowplot and colorspace from R and did a fresh install according to the README.

I did it just like this:

devtools::install_github("wilkelab/cowplot") install.packages("colorspace", repos = "http://R-Forge.R-project.org")

Then install colorblindr:

devtools::install_github("clauswilke/colorblindr")

I still get this message:

✔  checking for file ‘/private/var/folders/gx/mfdx8g856wvdtp0dw7k8h2s80000gn/T/RtmppTK84T/remotes11c7054eff5b7/clauswilke-colorblindr-1ac3d4d/DESCRIPTION’ ...
─  preparing ‘colorblindr’:
✔  checking DESCRIPTION meta-information ...
─  checking for LF line-endings in source and make files and shell scripts
─  checking for empty or unneeded directories
─  building ‘colorblindr_0.1.0.tar.gz’

* installing *source* package ‘colorblindr’ ...
** R
** inst
** byte-compile and prepare package for lazy loading
Error : object ‘desaturate’ is not exported by 'namespace:colorspace'
ERROR: lazy loading failed for package ‘colorblindr’
* removing ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library/colorblindr’
Error in i.p(...) : 
  (converted from warning) installation of package ‘/var/folders/gx/mfdx8g856wvdtp0dw7k8h2s80000gn/T//RtmppTK84T/file11c703e7d162c/colorblindr_0.1.0.tar.gz’ had non-zero exit status
clauswilke commented 5 years ago

The error message suggests you have an outdated version of colorspace. Could you paste the output of the following:

library(colorspace)
sessionInfo()
achamess commented 5 years ago 
> library(colorspace)
> sessionInfo()
R version 3.5.0 (2018-04-23)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS High Sierra 10.13.3

Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libRlapack.dylib

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] colorspace_1.4-0

loaded via a namespace (and not attached):
 [1] compiler_3.5.0   magrittr_1.5     htmltools_0.3.6  tools_3.5.0      yaml_2.1.19      Rcpp_1.0.0      
 [7] stringi_1.2.4    rmarkdown_1.10.8 knitr_1.20       htmldeps_0.1.1   digest_0.6.18    stringr_1.3.1   
[13] evaluate_0.11
clauswilke commented 5 years ago

Not sure what's happening. It looks like you have the right version (1.4-0), but then you seem to be missing functions that should exist in that version. Maybe contact Achim Zeileis? See here: http://colorspace.r-forge.r-project.org/contact.html

achamess commented 5 years ago

Thanks. Will do. In the meantime, is there somewhere I can find the colors for the palette_OkabeIto? That's really all I need. Or can I only get those colors if I use colorspace/colorblindr?

clairemcwhite commented 5 years ago 

#' Color palette proposed by Okabe and Ito
#'
#' Two color palettes taken from the article "Color Universal Design" by Okabe and Ito, http://jfly.iam.u-tokyo.ac.jp/color/.
#' The variant `palette_OkabeIto` contains a gray color, while `palette_OkabeIto_black` contains black instead.
#' @export
palette_OkabeIto <- c("#E69F00", "#56B4E9", "#009E73", "#F0E442", "#0072B2", "#D55E00", "#CC79A7", "#999999")

#' @rdname palette_OkabeIto
#' @export
palette_OkabeIto_black <- c("#E69F00", "#56B4E9", "#009E73", "#F0E442", "#0072B2", "#D55E00", "#CC79A7", "#000000")
clauswilke commented 5 years ago

I just contacted Achim Zeileis. The colorspace package on R forge is indeed currently broken and he'll see if he can fix it. I'll close this issue because the problem lies with the colorspace package.

achamess commented 5 years ago

Thanks. I’m glad the issue is not just particular to me. Thanks for helping me out.

From: Claus Wilke notifications@github.com Reply-To: clauswilke/colorblindr reply@reply.github.com Date: Wednesday, November 28, 2018 at 5:10 PM To: clauswilke/colorblindr colorblindr@noreply.github.com Cc: Alexander Chamessian alexander.chamessian@duke.edu, Author author@noreply.github.com Subject: Re: [clauswilke/colorblindr] Error in installing - cannot find desaturate from colorspace (#11)

I just contacted Achim Zeileis. The colorspace package on R forge is indeed currently broken and he'll see if he can fix it. I'll close this issue because the problem lies with the colorspace package.

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achamess commented 5 years ago

just wanted to follow up. it works now that colorspace has been updated on the R source forge page. Thanks!