Installation error #20
Description
Hi Developer,
Could you please help with the below error during installation. Thank you so much!
> devtools::install_github("BioGenies/imputomics")
Using GitHub PAT from the git credential store.
Downloading GitHub repo BioGenies/imputomics@HEAD
These packages have more recent versions available.
It is recommended to update all of them.
Which would you like to update?
1: All
2: CRAN packages only
3: None
4: Biobase (2.62.0 -> 9fd33eac9...) [Bioc]
5: NMF (0.28 -> 5d062d6f8...) [GitHub]
6: Rcpp (1.0.14 -> 1.1.0 ) [CRAN]
7: DEoptimR (1.1-3-1 -> 1.1-4 ) [CRAN]
8: utf8 (1.2.5 -> 1.2.6 ) [CRAN]
9: pillar (1.10.2 -> 1.11.0 ) [CRAN]
10: Deriv (4.1.6 -> 4.2.0 ) [CRAN]
11: cowplot (1.1.3 -> 1.2.0 ) [CRAN]
12: tibble (3.2.1 -> 3.3.0 ) [CRAN]
13: purrr (1.0.4 -> 1.1.0 ) [CRAN]
14: doBy (4.6.26 -> 4.7.0 ) [CRAN]
15: broom (1.0.8 -> 1.0.9 ) [CRAN]
16: pbkrtest (0.5.4 -> 0.5.5 ) [CRAN]
17: parallelly (1.45.0 -> 1.45.1 ) [CRAN]
18: globals (0.17.0 -> 0.18.0 ) [CRAN]
19: future (1.40.0 -> 1.67.0 ) [CRAN]
20: rprojroot (2.0.4 -> 2.1.0 ) [CRAN]
21: pkgbuild (1.4.7 -> 1.4.8 ) [CRAN]
22: waldo (0.6.1 -> 0.6.2 ) [CRAN]
23: evaluate (1.0.3 -> 1.0.4 ) [CRAN]
24: haven (2.5.4 -> 2.5.5 ) [CRAN]
25: glmnet (4.1-9 -> 4.1-10 ) [CRAN]
26: xfun (0.52 -> 0.53 ) [CRAN]
27: promises (1.3.2 -> 1.3.3 ) [CRAN]
28: emmeans (1.11.1 -> 1.11.2 ) [CRAN]
29: data.table (1.17.2 -> 1.17.8 ) [CRAN]
30: FactoMineR (2.11 -> 2.12 ) [CRAN]
31: checkmate (2.3.2 -> 2.3.3 ) [CRAN]
32: RcppArmad... (14.4.2-1 -> 14.6.0-1 ) [CRAN]
33: future.apply (1.11.3 -> 1.20.0 ) [CRAN]
34: pbapply (1.7-2 -> 1.7-4 ) [CRAN]
35: BiocManager (1.30.25 -> 1.30.26 ) [CRAN]
36: missMDA (1.19 -> 1.20 ) [CRAN]
37: commonmark (1.9.5 -> 2.0.0 ) [CRAN]
38: SimDesign (2.19.2 -> 2.20.0 ) [CRAN]
39: patchwork (1.3.0 -> 1.3.1 ) [CRAN]
40: shiny (1.10.0 -> 1.11.1 ) [CRAN]
Enter one or more numbers, or an empty line to skip updates:
Downloading package from url: https://cran.r-project.org/src/contrib/Archive/PEMM/PEMM_1.0.tar.gz
── R CMD build ─────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
✔ checking for file ‘/private/var/folders/zc/8vfv33l56bd_3sf0l1g729kr0000gn/T/RtmpAEJOr9/remotes60986e260e9b/PEMM/DESCRIPTION’ ...
─ preparing ‘PEMM’:
✔ checking DESCRIPTION meta-information
─ checking for LF line-endings in source and make files and shell scripts
─ checking for empty or unneeded directories
─ looking to see if a ‘data/datalist’ file should be added
─ building ‘PEMM_1.0.tar.gz’
* installing *source* package ‘PEMM’ ...
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (PEMM)
Downloading package from url: https://cran.r-project.org/src/contrib/Archive/TimeProjection/TimeProjection_0.2.0.tar.gz
── R CMD build ─────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
✔ checking for file ‘/private/var/folders/zc/8vfv33l56bd_3sf0l1g729kr0000gn/T/RtmpAEJOr9/remotes60984059b5c8/TimeProjection/DESCRIPTION’ ...
─ preparing ‘TimeProjection’:
✔ checking DESCRIPTION meta-information
─ checking for LF line-endings in source and make files and shell scripts
─ checking for empty or unneeded directories
─ building ‘TimeProjection_0.2.0.tar.gz’
* installing *source* package ‘TimeProjection’ ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
Warning messages:
1: package ‘lubridate’ was built under R version 4.3.3
2: package ‘timeDate’ was built under R version 4.3.3
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
Warning: package ‘lubridate’ was built under R version 4.3.3
Warning: package ‘timeDate’ was built under R version 4.3.3
** testing if installed package can be loaded from final location
Warning: package ‘lubridate’ was built under R version 4.3.3
Warning: package ‘timeDate’ was built under R version 4.3.3
** testing if installed package keeps a record of temporary installation path
* DONE (TimeProjection)
Downloading package from url: https://cran.r-project.org/src/contrib/Archive/PEMM/PEMM_1.0.tar.gz
Skipping PEMM, it is already being installed
Downloading package from url: https://cran.r-project.org/src/contrib/Archive/TimeProjection/TimeProjection_0.2.0.tar.gz
Skipping TimeProjection, it is already being installed
── R CMD build ─────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
✔ checking for file ‘/private/var/folders/zc/8vfv33l56bd_3sf0l1g729kr0000gn/T/RtmpAEJOr9/remotes60983408a2a6/BioGenies-imputomics-6943055/DESCRIPTION’ ...
─ preparing ‘imputomics’:
✔ checking DESCRIPTION meta-information ...
─ installing the package to process help pages
-----------------------------------
─ installing *source* package ‘imputomics’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
namespace ‘NMF’ 0.28 is being loaded, but >= 0.30.4.900 is required
Calls: <Anonymous> ... namespaceImportFrom -> asNamespace -> loadNamespace
Execution halted
ERROR: lazy loading failed for package ‘imputomics’
─ removing ‘/private/var/folders/zc/8vfv33l56bd_3sf0l1g729kr0000gn/T/RtmpDsNL09/Rinstd1f6a9a3239/imputomics’
-----------------------------------
ERROR: package installation failed
Error: Failed to install 'imputomics' from GitHub:
! System command 'R' failed