I was able to install the bdc package (for biodiversity cleaning) on RStudio, but got an error when I tried to load it with the library function. Where did I go wrong?
> install.packages("bdc")
trying URL '.3/bdc_1.1.5.tgz'
Content type 'application/x-gzip' length 806683 bytes (787 KB)
==================================================
downloaded 787 KB
The downloaded binary packages are in
/var/folders/jp/gz36r4cd223cntlnmc2s276m0000gn/T//Rtmpq6rW8Z/downloaded_packages
> library(bdc)
Error: package or namespace load failed for ‘bdc’ in dyn.load(file, DLLpath = DLLpath, ...):
unable to load shared object '/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/stringfish/libs/stringfish.so':
dlopen(/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/stringfish/libs/stringfish.so, 0x0006): symbol not found in flat namespace '__ZN12RcppParallel14tbbParallelForEmmRNS_6WorkerEmi'
In addition: Warning message:
package ‘bdc’ was built under R version 4.3.3
Here is my .libPaths() output:
.libPaths() [1] "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library"
sessionInfo() output:
R version 4.3.2 (2023-10-31)
Platform: aarch64-apple-darwin20 (64-bit)
Running under: macOS Sonoma 14.6.1
Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libRlapack.dylib; LAPACK version 3.11.0
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
time zone: Asia/Singapore
tzcode source: internal
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] DescTools_0.99.58 openxlsx_4.2.7.1 magrittr_2.0.3 plyr_1.8.9
[5] taxize_0.9.102 taxizedb_0.3.1 rredlist_1.0.0.9000 U.Taxonstand_1.2.9
[9] lubridate_1.9.4 forcats_1.0.0 stringr_1.5.1 purrr_1.0.2
[13] readr_2.1.5 tibble_3.2.1 ggplot2_3.5.1 tidyverse_2.0.0
[17] tidyr_1.3.1 dplyr_1.1.4 installr_0.23.4
loaded via a namespace (and not attached):
[1] rstudioapi_0.17.1 jsonlite_1.8.9 CoordinateCleaner_3.0.1
[4] fs_1.6.5 vctrs_0.6.5 memoise_2.0.1
[7] hoardr_0.5.4 solrium_1.2.0 ritis_1.0.0
[10] terra_1.8-10 htmltools_0.5.8.1 usethis_3.0.0
[13] haven_2.5.4 curl_6.2.0.9000 cellranger_1.1.0
[16] KernSmooth_2.23-22 htmlwidgets_1.6.4 rootSolve_1.8.2.4
[19] zoo_1.8-12 cachem_1.1.0 whisker_0.4.1
[22] mime_0.12 lifecycle_1.0.4 iterators_1.0.14
[25] pkgconfig_2.0.3 Matrix_1.6-5 R6_2.5.1
[28] fastmap_1.2.0 shiny_1.8.0 digest_0.6.37
[31] Exact_3.3 colorspace_2.1-1 rprojroot_2.0.4
[34] pkgload_1.3.4 RSQLite_2.3.9 urltools_1.7.3
[37] timechange_0.3.0 httr_1.4.7 compiler_4.3.2
[40] here_1.0.1 proxy_0.4-27 remotes_2.5.0
[43] bit64_4.6.0-1 withr_3.0.2 DBI_1.2.3
[46] pkgbuild_1.4.3 MASS_7.3-60 rappdirs_0.3.3
[49] sessioninfo_1.2.2 classInt_0.4-11 gld_2.6.6
[52] oai_0.4.0 tools_4.3.2 units_0.8-5
[55] ape_5.8-1 zip_2.3.1 httpuv_1.6.15
[58] rgbif_3.8.1 glue_1.8.0 nlme_3.1-164
[61] promises_1.3.2 grid_4.3.2 sf_1.0-19
[64] generics_0.1.3 gtable_0.3.6 tzdb_0.4.0
[67] class_7.3-22 data.table_1.16.4 lmom_3.2
[70] RApiSerialize_0.1.4 hms_1.1.3 sp_2.1-4
[73] xml2_1.3.6 foreach_1.5.2 pillar_1.10.1
[76] later_1.4.1 lattice_0.21-9 bit_4.5.0.1
[79] tidyselect_1.2.1 miniUI_0.1.1.1 pbapply_1.7-2
[82] crul_1.5.0 expm_1.0-0 devtools_2.4.5
[85] DT_0.33 stringi_1.8.4 lazyeval_0.2.2
[88] boot_1.3-28.1 codetools_0.2-19 httpcode_0.3.0
[91] cli_3.6.3 RcppParallel_5.1.9 xtable_1.8-4
[94] munsell_0.5.1 readxl_1.4.3 Rcpp_1.0.14
[97] rnaturalearth_1.0.1 triebeard_0.4.1 dbplyr_2.5.0
[100] parallel_4.3.2 ellipsis_0.3.2 blob_1.2.4
[103] profvis_0.4.0 urlchecker_1.0.1 mvtnorm_1.2-4
[106] scales_1.3.0 e1071_1.7-16 crayon_1.5.3
[109] geosphere_1.5-20 rlang_1.1.4
I've also run install.packages("stringfish") if that helps.
> install.packages("stringfish")
trying URL '.3/stringfish_0.16.0.tgz'
Content type 'application/x-gzip' length 1231643 bytes (1.2 MB)
==================================================
downloaded 1.2 MB
The downloaded binary packages are in
/var/folders/jp/gz36r4cd223cntlnmc2s276m0000gn/T//RtmpB5IHBS/downloaded_packages