Warnings when using heatmaply

[talgalili]

Describe the bug

Warnings when using heatmaply.

To Reproduce

I ran:

library(heatmaply)
heatmaply(mtcars)

I got:

> heatmaply(mtcars)
Warning messages:
1: In doTryCatch(return(expr), name, parentenv, handler) :
  unable to load shared object '/Library/Frameworks/R.framework/Resources/modules//R_X11.so':
  dlopen(/Library/Frameworks/R.framework/Resources/modules//R_X11.so, 6): Library not loaded: /opt/X11/lib/libfontconfig.1.dylib
  Referenced from: /Library/Frameworks/R.framework/Resources/modules//R_X11.so
  Reason: Incompatible library version: R_X11.so requires version 11.0.0 or later, but libfontconfig.1.dylib provides version 10.0.0
2: 'heatmap' objects don't have these attributes: 'showlegend'
Valid attributes include:
'type', 'visible', 'opacity', 'name', 'uid', 'ids', 'customdata', 'meta', 'hoverinfo', 'hoverlabel', 'stream', 'transforms', 'uirevision', 'z', 'x', 'x0', 'dx', 'y', 'y0', 'dy', 'text', 'hovertext', 'transpose', 'xtype', 'ytype', 'zsmooth', 'connectgaps', 'xgap', 'ygap', 'zhoverformat', 'hovertemplate', 'zauto', 'zmin', 'zmax', 'zmid', 'colorscale', 'autocolorscale', 'reversescale', 'showscale', 'colorbar', 'coloraxis', 'xcalendar', 'ycalendar', 'xaxis', 'yaxis', 'idssrc', 'customdatasrc', 'metasrc', 'hoverinfosrc', 'zsrc', 'xsrc', 'ysrc', 'textsrc', 'hovertextsrc', 'hovertemplatesrc', 'key', 'set', 'frame', 'transforms', '_isNestedKey', '_isSimpleKey', '_isGraticule', '_bbox'
 

Additional context

> sessionInfo()
R version 3.6.1 (2019-07-05)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Mojave 10.14.4

Matrix products: default
BLAS:   /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.6/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] heatmaply_1.0.0   viridis_0.5.1     viridisLite_0.3.0 plotly_4.9.1      ggplot2_3.2.0    

loaded via a namespace (and not attached):
 [1] gtools_3.8.1       tidyselect_0.2.5   purrr_0.3.3        reshape2_1.4.3    
 [5] colorspace_1.4-1   vctrs_0.2.0        htmltools_0.4.0    yaml_2.2.0        
 [9] rlang_0.4.1        later_1.0.0        pillar_1.4.2       glue_1.3.1        
[13] withr_2.1.2        RColorBrewer_1.1-2 registry_0.5-1     foreach_1.4.7     
[17] lifecycle_0.1.0    plyr_1.8.4         stringr_1.4.0      munsell_0.5.0     
[21] gtable_0.3.0       htmlwidgets_1.5.1  caTools_1.17.1.2   codetools_0.2-16  
[25] labeling_0.3       fastmap_1.0.1      httpuv_1.5.2       crosstalk_1.0.0   
[29] Cairo_1.5-10       seriation_1.2-8    Rcpp_1.0.2         xtable_1.8-4      
[33] KernSmooth_2.23-15 promises_1.1.0     backports_1.1.4    scales_1.0.0      
[37] gdata_2.18.0       webshot_0.5.2      jsonlite_1.6       mime_0.7          
[41] gplots_3.0.1.1     gridExtra_2.3      digest_0.6.20      stringi_1.4.3     
[45] gclus_1.3.2        shiny_1.4.0        dplyr_0.8.3        grid_3.6.1        
[49] tools_3.6.1        bitops_1.0-6       magrittr_1.5       lazyeval_0.2.2    
[53] tibble_2.1.3       cluster_2.1.0      crayon_1.3.4       tidyr_1.0.0       
[57] pkgconfig_2.0.2    zeallot_0.1.0      dendextend_1.13.0  MASS_7.3-51.4     
[61] data.table_1.12.6  assertthat_0.2.1   httr_1.4.0         rstudioapi_0.10   
[65] iterators_1.0.12   R6_2.4.0           TSP_1.1-7          compiler_3.6.1    

[alanocallaghan]

Warning 1 I have no idea, I think that's specific to your R installation. Try updating libfontconfig. I've seen lots of colleagues on mac having issues loading shared objs recently. This repo might help https://github.com/rmacoslib/r-macos-rtools

Second issue is from plotly, I've flagged it there plotly/plotly.R#1670

[talgalili]

Thanks @alanocallaghan
Let's hope plotly would solve it soon...

[alanocallaghan]

Is this still the case? I don't have access to osx to check

[talgalili]

I can still reproduce this warning.

library("heatmaply")
heatmaply(mtcars)

Also appears in Linux (mint)

> sessionInfo()
R version 3.6.3 (2020-02-29)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Linux Mint 19.2

Matrix products: default
BLAS:   /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.7.1
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.7.1

locale:
 [1] LC_CTYPE=en_IL.UTF-8       LC_NUMERIC=C               LC_TIME=en_IL.UTF-8       
 [4] LC_COLLATE=en_IL.UTF-8     LC_MONETARY=en_IL.UTF-8    LC_MESSAGES=en_IL.UTF-8   
 [7] LC_PAPER=en_IL.UTF-8       LC_NAME=C                  LC_ADDRESS=C              
[10] LC_TELEPHONE=C             LC_MEASUREMENT=en_IL.UTF-8 LC_IDENTIFICATION=C       

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

other attached packages:
[1] heatmaply_1.1.2   viridis_0.5.1     viridisLite_0.3.0 plotly_4.9.1      ggplot2_3.2.1    

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.3         tidyr_1.0.0        gtools_3.8.1       assertthat_0.2.1   digest_0.6.23     
 [6] foreach_1.4.7      mime_0.7           R6_2.4.1           plyr_1.8.5         evaluate_0.14     
[11] httr_1.4.1         pillar_1.4.2       gplots_3.1.0       rlang_0.4.6        lazyeval_0.2.2    
[16] rstudioapi_0.11    data.table_1.12.8  rmarkdown_1.18     labeling_0.3       webshot_0.5.2     
[21] stringr_1.4.0      htmlwidgets_1.5.1  munsell_0.5.0      shiny_1.4.0        compiler_3.6.3    
[26] httpuv_1.5.2       xfun_0.16          pkgconfig_2.0.3    htmltools_0.4.0    tidyselect_0.2.5  
[31] tibble_2.1.3       gridExtra_2.3      seriation_1.2-8    codetools_0.2-16   dendextend_1.14.0 
[36] crayon_1.3.4       dplyr_0.8.3        withr_2.1.2        later_1.0.0        MASS_7.3-53       
[41] bitops_1.0-6       grid_3.6.3         jsonlite_1.7.0     xtable_1.8-4       gtable_0.3.0      
[46] lifecycle_0.1.0    registry_0.5-1     magrittr_1.5       scales_1.1.0       KernSmooth_2.23-17
[51] stringi_1.4.3      farver_2.0.1       reshape2_1.4.3     promises_1.1.0     vctrs_0.3.1       
[56] RColorBrewer_1.1-2 iterators_1.0.12   tools_3.6.3        glue_1.3.1         purrr_0.3.3       
[61] gclus_1.3.2        crosstalk_1.0.0    fastmap_1.0.1      yaml_2.2.0         colorspace_1.4-1  
[66] cluster_2.1.0      caTools_1.18.0     TSP_1.1-8          knitr_1.26        

[talgalili]

I see you've reported it here: plotly/plotly.R#1670

I'll ping there again as well.

[talgalili]

Seems resolved to me now

> sessionInfo()
R version 3.6.3 (2020-02-29)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Linux Mint 19.2

Matrix products: default
BLAS:   /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.7.1
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.7.1

locale:
 [1] LC_CTYPE=en_IL.UTF-8       LC_NUMERIC=C               LC_TIME=en_IL.UTF-8       
 [4] LC_COLLATE=en_IL.UTF-8     LC_MONETARY=en_IL.UTF-8    LC_MESSAGES=en_IL.UTF-8   
 [7] LC_PAPER=en_IL.UTF-8       LC_NAME=C                  LC_ADDRESS=C              
[10] LC_TELEPHONE=C             LC_MEASUREMENT=en_IL.UTF-8 LC_IDENTIFICATION=C       

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

other attached packages:
[1] heatmaply_1.5.0   viridis_0.5.1     viridisLite_0.3.0 plotly_4.9.3      ggplot2_3.4.1    

loaded via a namespace (and not attached):
 [1] tidyselect_1.1.2   purrr_0.3.4        reshape2_1.4.4     colorspace_2.0-0   vctrs_0.6.1       
 [6] generics_0.1.0     htmltools_0.5.2    yaml_2.2.1         utf8_1.1.4         rlang_1.1.0       
[11] pillar_1.7.0       glue_1.6.2         withr_2.5.0        DBI_1.1.1          RColorBrewer_1.1-2
[16] registry_0.5-1     foreach_1.5.1      lifecycle_1.0.3    plyr_1.8.6         stringr_1.4.0     
[21] munsell_0.5.0      gtable_0.3.0       htmlwidgets_1.5.3  codetools_0.2-19   labeling_0.4.2    
[26] fastmap_1.1.0      crosstalk_1.1.1    seriation_1.2-9    fansi_0.4.2        Rcpp_1.0.8.3      
[31] scales_1.2.1       webshot_0.5.2      jsonlite_1.7.2     farver_2.0.3       gridExtra_2.3     
[36] digest_0.6.27      stringi_1.5.3      dplyr_1.0.9        grid_3.6.3         cli_3.6.1         
[41] tools_3.6.3        magrittr_2.0.1     lazyeval_0.2.2     tibble_3.1.7       crayon_1.4.1      
[46] tidyr_1.2.0        pkgconfig_2.0.3    dendextend_1.17.1  ellipsis_0.3.2     data.table_1.13.6 
[51] assertthat_0.2.1   httr_1.4.2         rstudioapi_0.13    iterators_1.0.13   R6_2.5.0          
[56] TSP_1.1-10         compiler_3.6.3