Installation with R 3.6.x

[nmskhan]

Hi
I was able to install RMINC successfully however, it says the no RMINC package available in R.
library(RMINC)
Error in library(RMINC) : there is no package called ‘RMINC’

installation information:
install_github("Mouse-Imaging-Centre/RMINC@develop"

• , upgrade_dependencies = FALSE)
  Downloading GitHub repo Mouse-Imaging-Centre/RMINC@develop
  Skipping 1 packages not available: rjson
  ✔ checking for file ‘/private/var/folders/0c/qkvhvzjj4vg_sq54mf_0fkg00000gp/T/RtmpRPXlND/remotes15edb4c9f147a/Mouse-Imaging-Centre-RMINC-2d4f07d/DESCRIPTION’ ...
  ─ preparing ‘RMINC’: (398ms)
  ✔ checking DESCRIPTION meta-information ...
  ─ cleaning src
  ─ running ‘cleanup’
  ─ checking for LF line-endings in source and make files and shell scripts
  ─ checking for empty or unneeded directories
  Removed empty directory ‘RMINC/etc’
  ─ looking to see if a ‘data/datalist’ file should be added
  ─ building ‘RMINC_1.5.2.3.tar.gz’

ERROR: dependency ‘rjson’ is not available for package ‘RMINC’

• removing ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library/RMINC’
  Error in action():
  ! class is absent but must be supplied.
  Run rlang::last_error() to see where the error occurred.
  Warning message:
  In i.p(...) :
  installation of package ‘/var/folders/0c/qkvhvzjj4vg_sq54mf_0fkg00000gp/T//RtmpRPXlND/file15edb2991bb9e/RMINC_1.5.2.3.tar.gz’ had non-zero exit status

I am not sure whether this is correctly installed. Please help me with how to fix this.
Thanks
Ned

[bcdarwin]

Right now RMINC won't install 'out of the box' with R 3.x due to other libraries like 'rjson' having dropped support. You need to either install R 4.x (risky since RMINC's test suite isn't passing) or download older versions of rjson etc.

Here's a sessionInfo dump of the versions I have installed which could be turned into a shell command or Packrat file:

other attached packages:
[1] MRIcrotome_0.2.0 RMINC_1.5.3.0   

loaded via a namespace (and not attached):
 [1] progress_1.2.2    tidyselect_1.1.1  purrr_0.3.4       splines_3.6.3    
 [5] lattice_0.20-45   vctrs_0.3.8       generics_0.1.1    htmltools_0.5.2  
 [9] yaml_2.2.2        utf8_1.2.2        rlang_1.0.0       pillar_1.6.5     
[13] nloptr_2.0.0      later_1.3.0       glue_1.6.1        withr_2.4.3      
[17] DBI_1.1.2         rappdirs_0.3.3    lifecycle_1.0.1   data.tree_1.0.0  
[21] visNetwork_2.1.0  htmlwidgets_1.5.4 fastmap_1.1.0     httpuv_1.6.5     
[25] batchtools_0.9.15 fansi_1.0.2       Rcpp_1.0.8        xtable_1.8-4     
[29] backports_1.4.1   promises_1.2.0.1  checkmate_2.0.0   jsonlite_1.7.3   
[33] mime_0.12         lme4_1.1-27.1     brew_1.0-6        rjson_0.2.20     
[37] hms_1.1.1         digest_0.6.29     stringi_1.7.6     dplyr_1.0.7      
[41] shiny_1.7.1       grid_3.6.3        cli_3.1.1         tools_3.6.3      
[45] magrittr_2.0.2    base64url_1.4     tibble_3.1.6      crayon_1.4.2     
[49] tidyr_1.1.4       pkgconfig_2.0.3   MASS_7.3-55       ellipsis_0.3.2   
[53] Matrix_1.4-0      gridBase_0.4-7    data.table_1.14.2 prettyunits_1.1.1
[57] assertthat_0.2.1  minqa_1.2.4       R6_2.5.1          boot_1.3-28      
[61] nlme_3.1-155      compiler_3.6.3

[nmskhan]

ok, Thanks, Let me try your suggestions. Appreciate your comments.

[bcdarwin]

Here's a packrat file that you can packrat::unbundle(<bundle_path>, where=<somewhere>) to create an installation: packratting-2022-03-18.tar.gz (just dependencies); packratting-2022-03-18.tar.gz (installs RMINC). [update: apparently they are both only dependencies, so you need to install RMINC via devtools]

It doesn't include the sources so is just a few text files you can easily inspect.

[nmskhan]

Thank you for more help. I will check it out.