Hello,
I need to use this repo and when I run renv::restore() I get the following error and haven't been able to resolve it. Any help would be greatly appreciated.
# renv::restore() came to this:
- Installing qs ... FAILED
Error: Error installing package 'qs':
==============================
* installing *source* package ‘qs’ ...
** package ‘qs’ successfully unpacked and MD5 sums checked
** using staged installation
checking for pkg-config... no
checking whether the C++ compiler works... yes
checking for C++ compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether clang++ -arch arm64 -std=gnu++17 accepts -g... yes
C++ compiler: clang++ -arch arm64 -std=gnu++17
Does not require -latomic flag
pkg-config not detected -- compiling zstd from source
pkg-confg not detected -- compiling lz4 from source
configure: creating ./config.status
config.status: creating src/Makevars
** libs
using C++ compiler: ‘Apple clang version 16.0.0 (clang-1600.0.26.6)’
using SDK: ‘’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -DRCPP_NO_RTTI -DRCPP_NO_SUGAR -I. -IZSTD -IZSTD/common -IZSTD/decompress -IZSTD/compress -ILZ4 -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/Rcpp/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/RApiSerialize/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/library/macos/R-4.4/aarch64-apple-darwin20/stringfish/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/BH/include' -I/opt/R/arm64/include -I/opt/homebrew/opt/libomp/include -Xclang -fopenmp -fPIC -g -O3 -Wall -pedantic -std=c++11 -mtune=native -pipe -Xclang -fopenmp -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -DRCPP_NO_RTTI -DRCPP_NO_SUGAR -I. -IZSTD -IZSTD/common -IZSTD/decompress -IZSTD/compress -ILZ4 -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/Rcpp/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/RApiSerialize/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/library/macos/R-4.4/aarch64-apple-darwin20/stringfish/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/BH/include' -I/opt/R/arm64/include -I/opt/homebrew/opt/libomp/include -Xclang -fopenmp -fPIC -g -O3 -Wall -pedantic -std=c++11 -mtune=native -pipe -Xclang -fopenmp -c qs_functions.cpp -o qs_functions.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -DRCPP_NO_RTTI -DRCPP_NO_SUGAR -I. -IZSTD -IZSTD/common -IZSTD/decompress -IZSTD/compress -ILZ4 -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/Rcpp/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/RApiSerialize/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/library/macos/R-4.4/aarch64-apple-darwin20/stringfish/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/BH/include' -I/opt/R/arm64/include -I/opt/homebrew/opt/libomp/include -Xclang -fopenmp -fPIC -g -O3 -Wall -pedantic -std=gnu99 -mtune=native -pipe -Xclang -fopenmp -c ZSTD/zstd.c -o ZSTD/zstd.o
ar rcs libQSZSTD.a ZSTD/zstd.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -DRCPP_NO_RTTI -DRCPP_NO_SUGAR -I. -IZSTD -IZSTD/common -IZSTD/decompress -IZSTD/compress -ILZ4 -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/Rcpp/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/RApiSerialize/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/library/macos/R-4.4/aarch64-apple-darwin20/stringfish/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/BH/include' -I/opt/R/arm64/include -I/opt/homebrew/opt/libomp/include -Xclang -fopenmp -fPIC -g -O3 -Wall -pedantic -std=c++11 -mtune=native -pipe -Xclang -fopenmp -c LZ4/lz4.cpp -o LZ4/lz4.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DRCPP_USE_UNWIND_PROTECT -DRCPP_NO_RTTI -DRCPP_NO_SUGAR -I. -IZSTD -IZSTD/common -IZSTD/decompress -IZSTD/compress -ILZ4 -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/Rcpp/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/RApiSerialize/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/library/macos/R-4.4/aarch64-apple-darwin20/stringfish/include' -I'/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/BH/include' -I/opt/R/arm64/include -I/opt/homebrew/opt/libomp/include -Xclang -fopenmp -fPIC -g -O3 -Wall -pedantic -std=c++11 -mtune=native -pipe -Xclang -fopenmp -c LZ4/lz4hc.cpp -o LZ4/lz4hc.o
ar rcs libQSLZ4.a LZ4/lz4.o LZ4/lz4hc.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -L/opt/homebrew/opt/libomp/lib -lomp -o qs.so RcppExports.o qs_functions.o -L. -lpthread -lQSZSTD -lQSLZ4 -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/00LOCK-qs/00new/qs/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/Users/whitedba/Library/Caches/org.R-project.R/R/renv/cache/v5/macos/R-4.4/aarch64-apple-darwin20/stringfish/0.16.0/b7eb79470319ae71d4b5ed9cd7bf7294/stringfish/libs/stringfish.so':
dlopen(/Users/whitedba/Library/Caches/org.R-project.R/R/renv/cache/v5/macos/R-4.4/aarch64-apple-darwin20/stringfish/0.16.0/b7eb79470319ae71d4b5ed9cd7bf7294/stringfish/libs/stringfish.so, 0x0006): symbol not found in flat namespace '__ZN12RcppParallel14tbbParallelForEmmRNS_6WorkerEmi'
Calls: <Anonymous> ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load
Execution halted
ERROR: lazy loading failed for package ‘qs’
* removing ‘/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/staging/1/qs’
install of package 'qs' failed [error code 1]
# Here is the renv diagnostics
> renv::diagnostics()
Diagnostics Report [renv 1.1.4]
===============================
# Session Info ---------------------------------------------------------------
R version 4.4.3 (2025-02-28)
Platform: aarch64-apple-darwin20
Running under: macOS Sonoma 14.5
Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRlapack.dylib; LAPACK version 3.12.0
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: America/Chicago
tzcode source: internal
attached base packages:
[1] stats graphics grDevices datasets utils methods base
loaded via a namespace (and not attached):
[1] compiler_4.4.3 tools_4.4.3 yaml_2.3.10 renv_1.1.4
# Project --------------------------------------------------------------------
Project path: "~/Desktop/metc/TBI_Household_Synthesis_Report"
# Status ---------------------------------------------------------------------
The following package(s) are in an inconsistent state:
package installed recorded used
abind n y ?
AsioHeaders n y ?
askpass n y ?
base64enc n y ?
bigD n y ?
bit n y ?
bit64 n y ?
bitops n y ?
blob n y ?
bslib n y ?
cachem n y ?
callr n y ?
cellranger n y ?
chromote n y ?
class y y ?
classInt n y ?
cli n y y
clipr n y ?
colorspace n y ?
commonmark n y ?
councilR n y y
cpp11 n y ?
crayon n y ?
crosstalk n y ?
crul n y ?
curl n y ?
data.table n y y
DBI n y ?
digest n y ?
dplyr n y y
e1071 n y ?
evaluate n y ?
fansi n y ?
farver n y ?
fastmap n y ?
flextable n y y
fontawesome n y ?
fontBitstreamVera n y ?
fontLiberation n y ?
fontquiver n y ?
forcats n y y
fs n y y
gdtools n y ?
generics n y ?
gfonts n y ?
ggplot2 n y y
ggspatial n y ?
glue n y ?
gt n y y
gtable n y ?
here n y y
highr n y ?
hms n y ?
htmltools n y y
htmlwidgets n y y
httpcode n y ?
httpuv n y ?
httr n y y
hunspell n y ?
isoband n y ?
janitor n y y
jpeg n y ?
jquerylib n y ?
jsonlite n y ?
juicyjuice n y ?
KernSmooth y y ?
knitr n y y
labeling n y ?
later n y ?
lattice y y ?
lazyeval n y ?
leaflet n y y
leaflet.providers n y ?
lifecycle n y ?
lubridate n y y
magrittr n y ?
markdown n y ?
MASS y y ?
Matrix y y ?
memoise n y ?
mgcv y y ?
mime n y ?
minqa n y ?
mitools n y ?
munsell n y ?
nlme y y ?
numDeriv n y ?
odbc n y ?
officer n y ?
openssl n y ?
pillar n y ?
pkgconfig n y ?
plotly n y y
png n y ?
prettyunits n y ?
processx n y ?
progress n y ?
promises n y ?
proxy n y ?
ps n y ?
purrr n y y
R.cache n y ?
R.methodsS3 n y ?
R.oo n y ?
R.utils n y ?
R6 n y ?
ragg n y ?
rappdirs n y ?
raster n y ?
RColorBrewer n y ?
RcppArmadillo n y ?
RcppTOML n y ?
reactable n y ?
reactR n y ?
readr n y ?
readxl n y y
rematch n y ?
reticulate n y y
rlang n y ?
rlist n y y
rmarkdown n y y
rosm n y ?
rprojroot n y y
rstudioapi n y y
rvest n y ?
s2 n y ?
sass n y ?
scales n y y
selectr n y ?
sf n y y
shiny n y ?
snakecase n y ?
sourcetools n y ?
sp n y ?
spelling n y y
srvyr n y y
stringi n y ?
stringr n y y
styler n y y
survey n y ?
survival y y ?
sys n y ?
systemfonts n y ?
terra n y ?
textshaping n y ?
tibble n y ?
tictoc n y ?
tidycensus n y y
tidyr n y y
tidyselect n y ?
tigris n y y
timechange n y ?
tinytex n y ?
travelSurveyTools n y y
triebeard n y ?
tzdb n y ?
units n y ?
urltools n y ?
utf8 n y ?
uuid n y ?
V8 n y ?
vctrs n y ?
viridisLite n y ?
vroom n y ?
webshot2 n y y
websocket n y ?
withr n y ?
wk n y ?
xfun n y ?
XML n y ?
xml2 n y ?
xtable n y ?
yaml n y ?
zip n y ?
The following package(s) are out of sync [lockfile != library]:
# CRAN -----------------------------------------------------------------------
- BH [1.84.0-0 != 1.87.0-1]
- class [7.3-22 != 7.3-23]
- KernSmooth [2.23-22 != 2.23-26]
- lattice [0.21-9 != 0.22-6]
- MASS [7.3-60 != 7.3-64]
- Matrix [1.6-1.1 != 1.7-2]
- mgcv [1.9-0 != 1.9-1]
- nlme [3.1-163 != 3.1-167]
- qs [0.26.3 != 0.27.3]
- RApiSerialize [0.1.3 != 0.1.4]
- Rcpp [1.0.13 != 1.0.14]
- RcppParallel [5.1.8 != 5.1.10]
- renv [1.0.7 != 1.1.4]
- survival [3.5-7 != 3.8-3]
See `?renv::status` for advice on resolving these issues.
# Packages -------------------------------------------------------------------
Library Source Lockfile Source Path Dependency
AsioHeaders <NA> <NA> 1.22.1-2 CRAN <NA> <NA>
BH 1.87.0-1 CRAN 1.84.0-0 CRAN [1] indirect
DBI <NA> <NA> 1.2.3 CRAN <NA> <NA>
KernSmooth 2.23-26 CRAN 2.23-22 CRAN [2] <NA>
MASS 7.3-64 CRAN 7.3-60 CRAN [2] <NA>
Matrix 1.7-2 CRAN 1.6-1.1 CRAN [2] <NA>
R.cache <NA> <NA> 0.16.0 CRAN <NA> <NA>
R.methodsS3 <NA> <NA> 1.8.2 CRAN <NA> <NA>
R.oo <NA> <NA> 1.26.0 CRAN <NA> <NA>
R.utils <NA> <NA> 2.12.3 CRAN <NA> <NA>
R6 <NA> <NA> 2.5.1 CRAN <NA> <NA>
RApiSerialize 0.1.4 CRAN 0.1.3 CRAN [1] indirect
RColorBrewer <NA> <NA> 1.1-3 CRAN <NA> <NA>
Rcpp 1.0.14 CRAN 1.0.13 CRAN [1] indirect
RcppArmadillo <NA> <NA> 14.0.0-1 CRAN <NA> <NA>
RcppParallel 5.1.10 CRAN 5.1.8 CRAN [1] indirect
RcppTOML <NA> <NA> 0.2.2 CRAN <NA> <NA>
V8 <NA> <NA> 4.4.2 CRAN <NA> <NA>
XML <NA> <NA> 3.99-0.17 CRAN <NA> <NA>
abind <NA> <NA> 1.4-5 CRAN <NA> <NA>
askpass <NA> <NA> 1.2.0 CRAN <NA> <NA>
base64enc <NA> <NA> 0.1-3 CRAN <NA> <NA>
bigD <NA> <NA> 0.2.0 CRAN <NA> <NA>
bit <NA> <NA> 4.0.5 CRAN <NA> <NA>
bit64 <NA> <NA> 4.0.5 CRAN <NA> <NA>
bitops <NA> <NA> 1.0-8 CRAN <NA> <NA>
blob <NA> <NA> 1.2.4 CRAN <NA> <NA>
boot 1.3-31 CRAN <NA> <NA> [2] <NA>
bslib <NA> <NA> 0.8.0 CRAN <NA> <NA>
cachem <NA> <NA> 1.1.0 CRAN <NA> <NA>
callr <NA> <NA> 3.7.6 CRAN <NA> <NA>
cellranger <NA> <NA> 1.1.0 RSPM <NA> <NA>
chromote <NA> <NA> 0.2.0 CRAN <NA> <NA>
class 7.3-23 CRAN 7.3-22 CRAN [2] <NA>
classInt <NA> <NA> 0.4-10 CRAN <NA> <NA>
cli <NA> <NA> 3.6.3 CRAN <NA> direct
clipr <NA> <NA> 0.8.0 CRAN <NA> <NA>
cluster 2.1.8 CRAN <NA> <NA> [2] <NA>
codetools 0.2-20 CRAN <NA> <NA> [2] <NA>
colorspace <NA> <NA> 2.1-1 CRAN <NA> <NA>
commonmark <NA> <NA> 1.9.1 CRAN <NA> <NA>
councilR <NA> <NA> 0.2.6 GitHub <NA> direct
cpp11 <NA> <NA> 0.4.7 CRAN <NA> <NA>
crayon <NA> <NA> 1.5.3 CRAN <NA> <NA>
crosstalk <NA> <NA> 1.2.1 CRAN <NA> <NA>
crul <NA> <NA> 1.5.0 CRAN <NA> <NA>
curl <NA> <NA> 5.2.1 CRAN <NA> <NA>
data.table <NA> <NA> 1.15.4 CRAN <NA> direct
digest <NA> <NA> 0.6.36 CRAN <NA> <NA>
dplyr <NA> <NA> 1.1.4 CRAN <NA> direct
e1071 <NA> <NA> 1.7-14 CRAN <NA> <NA>
evaluate <NA> <NA> 0.24.0 CRAN <NA> <NA>
fansi <NA> <NA> 1.0.6 CRAN <NA> <NA>
farver <NA> <NA> 2.1.2 CRAN <NA> <NA>
fastmap <NA> <NA> 1.2.0 CRAN <NA> <NA>
flextable <NA> <NA> 0.9.6 CRAN <NA> direct
fontBitstreamVera <NA> <NA> 0.1.1 CRAN <NA> <NA>
fontLiberation <NA> <NA> 0.1.0 CRAN <NA> <NA>
fontawesome <NA> <NA> 0.5.2 CRAN <NA> <NA>
fontquiver <NA> <NA> 0.2.1 CRAN <NA> <NA>
forcats <NA> <NA> 1.0.0 CRAN <NA> direct
foreign 0.8-88 CRAN <NA> <NA> [2] <NA>
fs <NA> <NA> 1.6.4 CRAN <NA> direct
gdtools <NA> <NA> 0.3.7 CRAN <NA> <NA>
generics <NA> <NA> 0.1.3 CRAN <NA> <NA>
gfonts <NA> <NA> 0.2.0 CRAN <NA> <NA>
ggplot2 <NA> <NA> 3.5.1 CRAN <NA> direct
ggspatial <NA> <NA> 1.1.9 CRAN <NA> <NA>
glue <NA> <NA> 1.7.0 CRAN <NA> <NA>
grDevices <NA> <NA> <NA> <NA> [2] indirect
graphics <NA> <NA> <NA> <NA> [2] indirect
gt <NA> <NA> 0.11.0 CRAN <NA> direct
gtable <NA> <NA> 0.3.5 CRAN <NA> <NA>
here <NA> <NA> 1.0.1 CRAN <NA> direct
highr <NA> <NA> 0.11 CRAN <NA> <NA>
hms <NA> <NA> 1.1.3 CRAN <NA> <NA>
htmltools <NA> <NA> 0.5.8.1 CRAN <NA> direct
htmlwidgets <NA> <NA> 1.6.4 CRAN <NA> direct
httpcode <NA> <NA> 0.3.0 CRAN <NA> <NA>
httpuv <NA> <NA> 1.6.15 CRAN <NA> <NA>
httr <NA> <NA> 1.4.7 CRAN <NA> direct
hunspell <NA> <NA> 3.0.3 CRAN <NA> <NA>
isoband <NA> <NA> 0.2.7 CRAN <NA> <NA>
janitor <NA> <NA> 2.2.0 CRAN <NA> direct
jpeg <NA> <NA> 0.1-10 CRAN <NA> <NA>
jquerylib <NA> <NA> 0.1.4 CRAN <NA> <NA>
jsonlite <NA> <NA> 1.8.8 CRAN <NA> <NA>
juicyjuice <NA> <NA> 0.1.0 CRAN <NA> <NA>
knitr <NA> <NA> 1.48 CRAN <NA> direct
labeling <NA> <NA> 0.4.3 CRAN <NA> <NA>
later <NA> <NA> 1.3.2 CRAN <NA> <NA>
lattice 0.22-6 CRAN 0.21-9 CRAN [2] <NA>
lazyeval <NA> <NA> 0.2.2 CRAN <NA> <NA>
leaflet <NA> <NA> 2.2.2 CRAN <NA> direct
leaflet.providers <NA> <NA> 2.0.0 CRAN <NA> <NA>
lifecycle <NA> <NA> 1.0.4 CRAN <NA> <NA>
lubridate <NA> <NA> 1.9.3 CRAN <NA> direct
magrittr <NA> <NA> 2.0.3 CRAN <NA> <NA>
markdown <NA> <NA> 1.13 CRAN <NA> <NA>
memoise <NA> <NA> 2.0.1 CRAN <NA> <NA>
methods <NA> <NA> <NA> <NA> [2] indirect
mgcv 1.9-1 CRAN 1.9-0 CRAN [2] <NA>
mime <NA> <NA> 0.12 CRAN <NA> <NA>
minqa <NA> <NA> 1.2.7 CRAN <NA> <NA>
mitools <NA> <NA> 2.4 CRAN <NA> <NA>
munsell <NA> <NA> 0.5.1 CRAN <NA> <NA>
nlme 3.1-167 CRAN 3.1-163 CRAN [2] <NA>
nnet 7.3-20 CRAN <NA> <NA> [2] <NA>
numDeriv <NA> <NA> 2016.8-1.1 CRAN <NA> <NA>
odbc <NA> <NA> 1.5.0 CRAN <NA> <NA>
officer <NA> <NA> 0.6.6 CRAN <NA> <NA>
openssl <NA> <NA> 2.2.0 CRAN <NA> <NA>
pillar <NA> <NA> 1.9.0 CRAN <NA> <NA>
pkgconfig <NA> <NA> 2.0.3 CRAN <NA> <NA>
plotly <NA> <NA> 4.10.4 CRAN <NA> direct
png <NA> <NA> 0.1-8 CRAN <NA> <NA>
prettyunits <NA> <NA> 1.2.0 CRAN <NA> <NA>
processx <NA> <NA> 3.8.4 CRAN <NA> <NA>
progress <NA> <NA> 1.2.3 CRAN <NA> <NA>
promises <NA> <NA> 1.3.0 CRAN <NA> <NA>
proxy <NA> <NA> 0.4-27 CRAN <NA> <NA>
ps <NA> <NA> 1.7.7 CRAN <NA> <NA>
purrr <NA> <NA> 1.0.2 CRAN <NA> direct
qs 0.27.3 CRAN 0.26.3 CRAN [1] direct
ragg <NA> <NA> 1.3.2 CRAN <NA> <NA>
rappdirs <NA> <NA> 0.3.3 CRAN <NA> <NA>
raster <NA> <NA> 3.6-26 CRAN <NA> <NA>
reactR <NA> <NA> 0.6.0 CRAN <NA> <NA>
reactable <NA> <NA> 0.4.4 CRAN <NA> <NA>
readr <NA> <NA> 2.1.5 CRAN <NA> <NA>
readxl <NA> <NA> 1.4.3 CRAN <NA> direct
rematch <NA> <NA> 2.0.0 RSPM <NA> <NA>
renv 1.1.4 CRAN 1.0.7 CRAN [1] direct
reticulate <NA> <NA> 1.38.0 CRAN <NA> direct
rlang <NA> <NA> 1.1.4 CRAN <NA> <NA>
rlist <NA> <NA> 0.4.6.2 CRAN <NA> direct
rmarkdown <NA> <NA> 2.27 CRAN <NA> direct
rosm <NA> <NA> 0.3.0 CRAN <NA> <NA>
rpart 4.1.24 CRAN <NA> <NA> [2] <NA>
rprojroot <NA> <NA> 2.0.4 CRAN <NA> direct
rstudioapi <NA> <NA> 0.16.0 CRAN <NA> direct
rvest <NA> <NA> 1.0.4 CRAN <NA> <NA>
s2 <NA> <NA> 1.1.7 CRAN <NA> <NA>
sass <NA> <NA> 0.4.9 CRAN <NA> <NA>
scales <NA> <NA> 1.3.0 CRAN <NA> direct
selectr <NA> <NA> 0.4-2 CRAN <NA> <NA>
sf <NA> <NA> 1.0-16 CRAN <NA> direct
shiny <NA> <NA> 1.9.1 CRAN <NA> <NA>
snakecase <NA> <NA> 0.11.1 CRAN <NA> <NA>
sourcetools <NA> <NA> 0.1.7-1 CRAN <NA> <NA>
sp <NA> <NA> 2.1-4 CRAN <NA> <NA>
spatial 7.3-18 CRAN <NA> <NA> [2] <NA>
spelling <NA> <NA> 2.3.0 CRAN <NA> direct
srvyr <NA> <NA> 1.2.0 CRAN <NA> direct
stats <NA> <NA> <NA> <NA> [2] indirect
stringfish 0.16.0 CRAN 0.16.0 CRAN [1] indirect
stringi <NA> <NA> 1.8.4 CRAN <NA> <NA>
stringr <NA> <NA> 1.5.1 CRAN <NA> direct
styler <NA> <NA> 1.10.3 CRAN <NA> direct
survey <NA> <NA> 4.4-2 CRAN <NA> <NA>
survival 3.8-3 CRAN 3.5-7 CRAN [2] <NA>
sys <NA> <NA> 3.4.2 CRAN <NA> <NA>
systemfonts <NA> <NA> 1.1.0 CRAN <NA> <NA>
terra <NA> <NA> 1.7-78 CRAN <NA> <NA>
textshaping <NA> <NA> 0.4.0 CRAN <NA> <NA>
tibble <NA> <NA> 3.2.1 CRAN <NA> <NA>
tictoc <NA> <NA> 1.2.1 CRAN <NA> <NA>
tidycensus <NA> <NA> 1.6.5 CRAN <NA> direct
tidyr <NA> <NA> 1.3.1 CRAN <NA> direct
tidyselect <NA> <NA> 1.2.1 CRAN <NA> <NA>
tigris <NA> <NA> 2.1 CRAN <NA> direct
timechange <NA> <NA> 0.3.0 CRAN <NA> <NA>
tinytex <NA> <NA> 0.52 CRAN <NA> <NA>
travelSurveyTools <NA> <NA> 2.4.3 GitHub <NA> direct
triebeard <NA> <NA> 0.4.1 CRAN <NA> <NA>
tzdb <NA> <NA> 0.4.0 CRAN <NA> <NA>
units <NA> <NA> 0.8-5 CRAN <NA> <NA>
urltools <NA> <NA> 1.7.3 CRAN <NA> <NA>
utf8 <NA> <NA> 1.2.4 CRAN <NA> <NA>
utils <NA> <NA> <NA> <NA> [2] indirect
uuid <NA> <NA> 1.2-1 CRAN <NA> <NA>
vctrs <NA> <NA> 0.6.5 CRAN <NA> <NA>
viridisLite <NA> <NA> 0.4.2 CRAN <NA> <NA>
vroom <NA> <NA> 1.6.5 CRAN <NA> <NA>
webshot2 <NA> <NA> 0.1.1 CRAN <NA> direct
websocket <NA> <NA> 1.4.2 CRAN <NA> <NA>
withr <NA> <NA> 3.0.1 CRAN <NA> <NA>
wk <NA> <NA> 0.9.2 CRAN <NA> <NA>
xfun <NA> <NA> 0.46 CRAN <NA> <NA>
xml2 <NA> <NA> 1.3.6 CRAN <NA> <NA>
xtable <NA> <NA> 1.8-4 CRAN <NA> <NA>
yaml <NA> <NA> 2.3.10 CRAN <NA> <NA>
zip <NA> <NA> 2.3.1 CRAN <NA> <NA>
[1]: /Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report/renv/library/macos/R-4.4/aarch64-apple-darwin20
[2]: /Users/whitedba/Library/Caches/org.R-project.R/R/renv/sandbox/macos/R-4.4/aarch64-apple-darwin20/f7156815
# ABI ------------------------------------------------------------------------
- No ABI problems were detected in the set of installed packages.
# User Profile ---------------------------------------------------------------
Source Package Require Version Dev
1 /Users/whitedba/.Rprofile keyring TRUE
# Settings -------------------------------------------------------------------
List of 13
$ bioconductor.version : NULL
$ external.libraries : chr(0)
$ ignored.packages : chr(0)
$ package.dependency.fields: chr [1:3] "Imports" "Depends" "LinkingTo"
$ ppm.enabled : NULL
$ ppm.ignored.urls : NULL
$ r.version : NULL
$ snapshot.type : chr "implicit"
$ use.cache : logi TRUE
$ vcs.ignore.cellar : logi TRUE
$ vcs.ignore.library : logi TRUE
$ vcs.ignore.local : logi TRUE
$ vcs.manage.ignores : logi TRUE
# Options --------------------------------------------------------------------
List of 9
$ defaultPackages : chr [1:6] "datasets" "utils" "grDevices" "graphics" ...
$ download.file.method : chr "libcurl"
$ download.file.extra : NULL
$ install.packages.compile.from.source: chr "interactive"
$ pkgType : chr "both"
$ repos : Named chr "https://cloud.r-project.org"
..- attr(*, "names")= chr "CRAN"
$ renv.consent : logi TRUE
$ renv.project.path : chr "/Users/whitedba/Desktop/metc/TBI_Household_Synthesis_Report"
$ renv.verbose : logi TRUE
# PATH -----------------------------------------------------------------------
- /Users/whitedba/miniconda3/bin
- /usr/local/bin
- /System/Cryptexes/App/usr/bin
- /usr/bin
- /bin
- /usr/sbin
- /sbin
- /var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/local/bin
- /var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/bin
- /var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/appleinternal/bin
- /Library/Apple/usr/bin
- /Applications/quarto/bin
- /Library/TeX/texbin
- /usr/texbin
- /Applications/RStudio.app/Contents/Resources/app/quarto/bin
- /Applications/RStudio.app/Contents/Resources/app/bin/postback
# Cache ----------------------------------------------------------------------
There are a total of 247 packages installed in the renv cache.
Cache path: "~/Library/Caches/org.R-project.R/R/renv/cache/v5/macos/R-4.4/aarch64-apple-darwin20"
Warning messages:
1: error reading symbols [error code 1]
nm -D '/Users/whitedba/Library/Caches/org.R-project.R/R/renv/cache/v5/macos/R-4.4/aarch64-apple-darwin20/stringfish/0.16.0/b7eb79470319ae71d4b5ed9cd7bf7294/stringfish/libs/stringfish.so'
================================================================================
/Library/Developer/CommandLineTools/usr/bin/nm: error: /Users/whitedba/Library/Caches/org.R-project.R/R/renv/cache/v5/macos/R-4.4/aarch64-apple-darwin20/stringfish/0.16.0/b7eb79470319ae71d4b5ed9cd7bf7294/stringfish/libs/stringfish.so: File format has no dynamic symbol table
2: error reading symbols [error code 1]
nm -D '/Users/whitedba/Library/Caches/org.R-project.R/R/renv/cache/v5/macos/R-4.4/aarch64-apple-darwin20/qs/0.27.3/c9b643f00e514841ba0ded6dc33f788b/qs/libs/qs.so'
================================================================================
/Library/Developer/CommandLineTools/usr/bin/nm: error: /Users/whitedba/Library/Caches/org.R-project.R/R/renv/cache/v5/macos/R-4.4/aarch64-apple-darwin20/qs/0.27.3/c9b643f00e514841ba0ded6dc33f788b/qs/libs/qs.so: File format has no dynamic symbol table
Do you have any better luck if you first install RcppParallel, and then restore the lockfile? E.g.
renv::install("RcppParallel")
renv::restore()
For what it's worth, this error:
symbol not found in flat namespace '__ZN12RcppParallel14tbbParallelForEmmRNS_6WorkerEmi'
most likely implies that the stringfish package was built against a newer version of RcppParallel than is currently installed.
Thanks for the reply!
Unfortunately, we got the same outcome:
> renv::install("RcppParallel")
The following package(s) will be installed:
- RcppParallel [5.1.10]
These packages will be installed into "~/Desktop/metc/TBI_Household_Synthesis_Report/renv/library/macos/R-4.4/aarch64-apple-darwin20".
Do you want to proceed? [Y/n]:
# Installing packages --------------------------------------------------------
- Installing RcppParallel ... OK [linked from cache]
Successfully installed 1 package in 8.1 milliseconds.
> renv::restore()
The following package(s) will be updated:
# CRAN -----------------------------------------------------------------------
- RcppParallel [5.1.10 -> 5.1.8]
- qs [* -> 0.26.3]
Do you want to proceed? [Y/n]:
# Downloading packages -------------------------------------------------------
- Downloading qs from CRAN ... OK [file is up to date]
Successfully downloaded 1 package in 0.14 seconds.
# Installing packages --------------------------------------------------------
- Installing RcppParallel ... OK [linked from cache]
- Installing qs ... FAILED
Error: Error installing package 'qs':
==============================
Hi there, got the same problem, fixed by recompiling exact versions of dependencies:
> renv::install(c("RcppParallel@5.1.8","stringfish@0.16.0"), type = "source", rebuild = TRUE)
> renv::restore()
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