Closed fdetsch closed 4 years ago
kevinushey
commented
4 years ago It sounds like some unexpected paths found their way into the cache. Can you share the output of:
fmt <- "cd %s; find . | grep x86_64"
cmd <- sprintf(fmt, shQuote(renv::paths$cache()))
system(cmd)It sort of seems like cache paths, or library paths, got copied into the cache directly in some odd way? You could try finding those directories in the cache; you should be able to safely remove them.
fdetsch
commented
4 years ago Console output attached below (at least, the part that wasn't clipped off in my console)
I deleted all listed packages and then had to to a reinstall due to broken symlinks into the cache. Seems to be fixed now. Thanks for the assistance.
kevinushey
commented
4 years ago Thanks! Let me know if you encounter this again and can provide a reproducible example.
renv::status()creates the following output:This just popped up a couple of days ago although I haven't made any major changes to my code (at least not to the best of my knowledge). Any ideas where this might come from and how to fix it?
sessionInfo():
```r R version 4.0.2 (2020-06-22) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 18.04.5 LTS 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=C.UTF-8 LC_NUMERIC=C LC_TIME=C.UTF-8 LC_COLLATE=C.UTF-8 [5] LC_MONETARY=C.UTF-8 LC_MESSAGES=C.UTF-8 LC_PAPER=C.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C LC_MEASUREMENT=C.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices datasets utils methods base loaded via a namespace (and not attached): [1] reticulate_1.16 lutz_0.3.1 zoo_1.8-8 webutils_1.1 remotes_2.2.0 [6] sf_0.9-5 GA_3.2 lattice_0.20-41 changepoint_2.2.2 swagger_3.32.5 [11] generics_0.0.2 testthat_2.3.2 usethis_1.6.1 rlang_0.4.7 pkgbuild_1.1.0 [16] e1071_1.7-3 later_1.1.0.1 suncalc_0.5.0 glue_1.4.2 withr_2.2.0 [21] DBI_1.1.0 mltools_0.3.5 sessioninfo_1.1.1 foreach_1.5.0 lifecycle_0.2.0 [26] anytime_0.3.9 ModelDB_0.1.5 devtools_2.3.1 codetools_0.2-16 memoise_1.1.0 [31] callr_3.4.4 ps_1.3.4 parallel_4.0.2 class_7.3-17 fansi_0.4.1 [36] Rcpp_1.0.5 KernSmooth_2.23-17 renv_0.12.0 promises_1.1.1 backports_1.1.9 [41] classInt_0.4-3 mongolite_2.2.0 desc_1.2.0 pkgload_1.1.0 jsonlite_1.7.1 [46] fs_1.5.0 digest_0.6.25 stringi_1.5.3 condimon_0.0.8 processx_3.4.4 [51] plumber_0.9.9.9000 rprojroot_1.3-2 grid_4.0.2 cli_2.0.2 tools_4.0.2 [56] magrittr_1.5 DStoolboxLite_0.1.0 crayon_1.3.4 ellipsis_0.3.1 Matrix_1.2-18 [61] data.table_1.13.0 prettyunits_1.1.1 lubridate_1.7.9 assertthat_0.2.1 rstudioapi_0.11 [66] iterators_1.0.12 R6_2.4.1 units_0.6-7 compiler_4.0.2 ```