Unable to Install qiime2R

[sleverhart]

Hello - I'm trying to install qiime2R in RStudio (v2023.09.0+463) using the code provided:

If (!requireNamespace("devtools", quietly = TRUE)){install.packages("devtools")}
devtools::install_github("jbisanz/qiime2R")

This command gave the following output at the end:

ERROR: dependency ‘Hmisc’ is not available for package ‘qiime2R’
* removing ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library/qiime2R’
Warning messages:
1: In i.p(...) :
  installation of package ‘stringi’ had non-zero exit status
2: In i.p(...) :
  installation of package ‘RcppArmadillo’ had non-zero exit status
3: In i.p(...) : installation of package ‘vegan’ had non-zero exit status
4: In i.p(...) : installation of package ‘igraph’ had non-zero exit status
5: In i.p(...) : installation of package ‘ape’ had non-zero exit status
6: In i.p(...) : installation of package ‘Hmisc’ had non-zero exit status
7: In i.p(...) : installation of package ‘ade4’ had non-zero exit status
8: In i.p(...) :
  installation of package ‘/var/folders/pg/08g3vsq5451gz2slxjl12gh40000gn/T//RtmpQoAkkX/fileb6aa4c62c755/qiime2R_0.99.6.tar.gz’ had non-zero exit status

So, when I try to add qiime2R into my library, I get the following error.

> library(qiime2R)
Error in library(qiime2R) : there is no package called ‘qiime2R’

[jbisanz]

It sounds like the problem is in the installation of all the dependencies. Can you send your sessionInfo()?

[sleverhart]

It sounds like the problem is in the installation of all the dependencies. Can you send your sessionInfo()?

R version 4.0.4 (2021-02-15)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS 13.4

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] stats     graphics  grDevices utils     datasets  methods   base     

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.11       urlchecker_1.0.1  compiler_4.0.4    later_1.3.1       remotes_2.4.2.1  
 [6] prettyunits_1.1.1 profvis_0.3.8     tools_4.0.4       digest_0.6.33     pkgbuild_1.4.2   
[11] pkgload_1.3.2.1   evaluate_0.21     memoise_2.0.1     lifecycle_1.0.3   rlang_1.1.1      
[16] shiny_1.7.4.1     cli_3.6.1         rstudioapi_0.15.0 curl_5.0.2        yaml_2.3.7       
[21] xfun_0.40         fastmap_1.1.1     stringr_1.5.0     knitr_1.44        desc_1.4.2       
[26] fs_1.6.3          htmlwidgets_1.6.2 vctrs_0.6.3       devtools_2.4.5    rprojroot_2.0.3  
[31] glue_1.6.2        R6_2.5.1          processx_3.8.2    rmarkdown_2.25    sessioninfo_1.2.2
[36] callr_3.7.3       purrr_1.0.2       magrittr_2.0.3    usethis_2.2.2     promises_1.2.1   
[41] ps_1.7.5          ellipsis_0.3.2    htmltools_0.5.6   mime_0.12         xtable_1.8-4     
[46] httpuv_1.6.11     stringi_1.7.5     miniUI_0.1.1.1    cachem_1.0.8      crayon_1.5.2   

[sleverhart]

Was able to circle back to this and figured it out. I can't remember which dependency was giving me issues within the qiime2R install this time (it may have been the same one listed above), but I just individually installed the one package that was giving me the problem. You'd actually recommended this to someone else who was having a similar issue in a QIIME forum - thank you!