Complexheatmap Installation Issue
1
0
Entering edit mode
@52b996fe
Last seen 4.0 years ago

Hello!

I have installed Complexheatmap but am receiving the following error when loading the package. Below is my code followed by output.

I tried installing the package "Cairo" and my system says it's installed but I still receive the same error.

Let me know if you need additional information!


> library(ComplexHeatmap)
Error: package or namespace load failed for ‘ComplexHeatmap’:
 .onLoad failed in loadNamespace() for 'Cairo', details:
  call: dyn.load(file, DLLpath = DLLpath, ...)
  error: unable to load shared object '/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Cairo/libs/Cairo.so':
  dlopen(/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Cairo/libs/Cairo.so, 6): Library not loaded: /opt/X11/lib/libXrender.1.dylib
  Referenced from: /Library/Frameworks/R.framework/Versions/4.0/Resources/library/Cairo/libs/Cairo.so
  Reason: image not found

> BiocManager::valid()
[1] TRUE

> traceback()
6: stop(msg, call. = FALSE, domain = NA)
5: value[[3L]](cond)
4: tryCatchOne(expr, names, parentenv, handlers[[1L]])
3: tryCatchList(expr, classes, parentenv, handlers)
2: tryCatch({
       attr(package, "LibPath") <- which.lib.loc
       ns <- loadNamespace(package, lib.loc)
       env <- attachNamespace(ns, pos = pos, deps, exclude, include.only)
   }, error = function(e) {
       P <- if (!is.null(cc <- conditionCall(e))) 
           paste(" in", deparse(cc)[1L])
       else ""
       msg <- gettextf("package or namespace load failed for %s%s:\n %s", 
           sQuote(package), P, conditionMessage(e))
       if (logical.return) 
           message(paste("Error:", msg), domain = NA)
       else stop(msg, call. = FALSE, domain = NA)
   })
1: library(ComplexHeatmap)

> sessionInfo()
R version 4.0.3 (2020-10-10)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Big Sur 10.16

Matrix products: default
LAPACK: /Library/Frameworks/R.framework/Versions/4.0/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] grid      stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] Rsubread_2.4.2     forcats_0.5.0      stringr_1.4.0      purrr_0.3.4       
 [5] readr_1.4.0        tidyr_1.1.2        tibble_3.0.4       tidyverse_1.3.0   
 [9] RColorBrewer_1.1-2 dplyr_1.0.2        edgeR_3.32.0       limma_3.46.0      
[13] ggplot2_3.3.3      gplots_3.1.1      

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.5          locfit_1.5-9.4      lubridate_1.7.9.2   lattice_0.20-41    
 [5] png_0.1-7           gtools_3.8.2        assertthat_0.2.1    digest_0.6.27      
 [9] R6_2.5.0            cellranger_1.1.0    backports_1.2.1     reprex_0.3.0       
[13] evaluate_0.14       httr_1.4.2          pillar_1.4.7        rlang_0.4.10       
[17] readxl_1.3.1        rstudioapi_0.13     Matrix_1.3-2        rmarkdown_2.6      
[21] munsell_0.5.0       tinytex_0.28        broom_0.7.3         compiler_4.0.3     
[25] modelr_0.1.8        xfun_0.20           pkgconfig_2.0.3     htmltools_0.5.0    
[29] tidyselect_1.1.0    matrixStats_0.57.0  fansi_0.4.1         crayon_1.3.4       
[33] dbplyr_2.0.0        withr_2.3.0         bitops_1.0-6        jsonlite_1.7.2     
[37] gtable_0.3.0        lifecycle_0.2.0     DBI_1.1.0           magrittr_2.0.1     
[41] scales_1.1.1        KernSmooth_2.23-18  cli_2.2.0           stringi_1.5.3      
[45] fs_1.5.0            xml2_1.3.2          ellipsis_0.3.1      generics_0.1.0     
[49] vctrs_0.3.6         tools_4.0.3         glue_1.4.2          hms_0.5.3          
[53] yaml_2.2.1          colorspace_2.0-0    BiocManager_1.30.10 caTools_1.18.0     
[57] rvest_0.3.6         knitr_1.30          haven_2.3.1
ComplexHeatmap • 6.5k views
ADD COMMENT
2
Entering edit mode
@james-w-macdonald-5106
Last seen 1 day ago
United States

You might need to install XQuartz. I can't confirm, not being a Mac person

ADD COMMENT
0
Entering edit mode

... yet ... I still think you have it in you, Jim :-p

ADD REPLY
0
Entering edit mode

Actually I have two old MacBook Pro laptops sitting under my desk as we speak. Gathering dust... So I did try, but couldn't get over the hump. Somehow it always seems to me that the goal for Apple is to make things easier for you by making it oh so much harder. I mean, when it's easier to install R on Windows with the ability to build source packages than on a Mac?

ADD REPLY
0
Entering edit mode

That worked! You rock and thank you for the fast response!

ADD REPLY

Login before adding your answer.

Traffic: 464 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6