Question: Installation of CountClust fails
gravatar for Daniel Bottomly
11 months ago by
United States
Daniel Bottomly20 wrote:


I'm having an issue loading the release version of CountClust. See below for a reproducible example with error in yellow. I assume this is due to changes in the 'cowplot' CRAN package?



> source("")

Bioconductor version 3.4 (BiocInstaller 1.24.0), ?biocLite for help

> biocLite("CountClust")


Using Bioconductor 3.4 (BiocInstaller 1.24.0), R 3.3.3 (2017-03-06).

Installing package(s) ‘CountClust’

trying URL ''

Content type 'application/x-gzip' length 17561608 bytes (16.7 MB)


downloaded 16.7 MB

The downloaded binary packages are in


> library(CountClust)

Loading required package: ggplot2

Error : object ‘switch_axis_position’ is not exported by 'namespace:cowplot'

Error: package or namespace load failed for ‘CountClust’

> biocValid()

[1] TRUE

> sessionInfo()

R version 3.3.3 (2017-03-06)

Platform: x86_64-apple-darwin13.4.0 (64-bit)

Running under: OS X El Capitan 10.11.6


[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] ggplot2_2.2.1        BiocInstaller_1.24.0

loaded via a namespace (and not attached):

 [1] Rcpp_0.12.10     gtools_3.5.0     slam_0.1-40      grid_3.3.3       plyr_1.8.4       gtable_0.2.0     magrittr_1.5     scales_0.4.1     stringi_1.1.3    reshape2_1.4.2   lazyeval_0.2.0   cowplot_0.7.0    tools_3.3.3      stringr_1.2.0    munsell_0.4.3    colorspace_1.3-2 tibble_1.3.0    

ADD COMMENTlink written 11 months ago by Daniel Bottomly20

Try via devtools -> install_github("kkdey/Countclust") instead (they made some changes on the github version).

ADD REPLYlink written 11 months ago by joseph.bergenstrahle0

Yes, that does work for me.  However, it is unfortunate that the main Bioconductor version does not.

ADD REPLYlink written 11 months ago by Daniel Bottomly20
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