我正在尝试renv运行，以便在不同的系统上恢复项目的库。
这是我的工作流程：
[在 MacOS，R 3.6.3 上]：创建了一个 RStudio 项目，其中包含 2 个脚本文件，其中包含一些库调用（
tidyverse,ggpubr，一个来自 github）。冉
renv::snapshot()和renv::activate()将项目提交到 git 存储库
[Docker]：启动了一个基于 Linux 的
rocker/rstudio:3.6.3.克隆了上面的项目。打开项目。
renv初始化。跑
renv::restore()
但是，即使对于简单的 CRAN 包，它也会引发奇怪的错误：
> renv::restore()
[... package list removed...]
Do you want to proceed? [y/N]: y
Retrieving 'https://api.github.com/repos/rstudio/renv/tarball/e996b619471ea5174322e1287f94fcc3cf026010' ...
OK [file is up to date]
Retrieving 'https://mran.microsoft.com/src/contrib/boot_1.3-25.tar.gz' ...
OK [file is up to date]
Retrieving 'https://mran.microsoft.com/src/contrib/lattice_0.20-41.tar.gz' ...
OK [file is up to date]
The following error(s) occurred while retrieving 'MASS':
- character(0)
Error: failed to retrieve package 'MASS'
我不知道如何处理该错误消息。我尝试了其他存储库源（例如 MRAN），但没有成功。
有什么想法可能会出错吗？
非常感谢，扬
renv::diagnostics()输出：
> renv::diagnostics()
Diagnostics Report -- renv [0.12.3-64]
======================================
# Session Info =======================
R version 3.6.3 (2020-02-29)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Debian GNU/Linux 10 (buster)
Matrix products: default
BLAS/LAPACK: /usr/lib/x86_64-linux-gnu/libopenblasp-r0.3.5.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=C
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices datasets utils methods base
loaded via a namespace (and not attached):
[1] compiler_3.6.3 tools_3.6.3 renv_0.12.3-64
# Project ============================
Project path: "~/renv_testing"
# Status =============================
The following package(s) are no longer used in this project:
_
BH [1.72.0-3]
BiocGenerics [0.32.0]
BiocManager [1.30.10]
BiocParallel [1.20.1]
BiocVersion [3.10.1]
DBI [1.1.0]
Formula [1.2-4]
GeneNet [1.2.15]
Hmisc [4.4-2]
MASS [7.3-51.6]
Matrix [1.2-18]
MatrixModels [0.4-1]
R.methodsS3 [1.8.1]
R.oo [1.24.0]
R.utils [2.10.1]
R6 [2.5.0]
RColorBrewer [1.1-2]
RCy3 [2.6.3]
RJSONIO [1.3-1.4]
Rcpp [1.0.5]
RcppArmadillo [0.9.900.2.0]
RcppEigen [0.3.3.9.1]
Rdpack [2.1]
SparseM [1.78]
XML [3.99-0.3]
abind [1.4-5]
askpass [1.1]
assertthat [0.2.1]
backports [1.2.1]
base64enc [0.1-3]
blob [1.2.1]
boot [1.3-25]
brio [1.1.0]
broom [0.7.3]
callr [3.5.1]
car [3.0-9]
carData [3.0-4]
cellranger [1.1.0]
checkmate [2.0.0]
cli [2.2.0]
clipr [0.7.1]
cluster [2.1.0]
colorspace [2.0-0]
conquer [1.0.1]
corpcor [1.6.9]
corrplot [0.84]
cowplot [1.0.0]
cpp11 [0.2.4]
crayon [1.3.4]
curl [4.3]
data.table [1.13.4]
dbplyr [2.0.0]
desc [1.2.0]
diffobj [0.3.2]
digest [0.6.27]
dplyr [1.0.2]
ellipsis [0.3.1]
evaluate [0.14]
fansi [0.4.1]
farver [2.0.3]
fdrtool [1.2.15]
forcats [0.5.0]
foreign [0.8-76]
formatR [1.7]
fs [1.5.0]
futile.logger [1.4.3]
futile.options [1.0.1]
gbRd [0.4-11]
generics [0.1.0]
ggplot2 [3.3.2]
ggrepel [0.9.0]
ggsci [2.9]
ggsignif [0.6.0]
glue [1.4.2]
graph [1.64.0]
gridExtra [2.3]
gtable [0.3.0]
haven [2.3.1]
highr [0.8]
hms [0.5.3]
htmlTable [2.1.0]
htmltools [0.5.0]
htmlwidgets [1.5.3]
httr [1.4.2]
igraph [1.2.6]
isoband [0.2.3]
jpeg [0.1-8.1]
jsonlite [1.7.2]
knitr [1.30]
labeling [0.4.2]
lambda.r [1.2.4]
lattice [0.20-41]
latticeExtra [0.6-29]
lifecycle [0.2.0]
lme4 [1.1-26]
longitudinal [1.1.12]
lubridate [1.7.9.2]
magrittr [2.0.1]
maptools [1.0-1]
markdown [1.1]
matrixStats [0.57.0]
mgcv [1.8-31]
mime [0.9]
minqa [1.2.4]
modelr [0.1.8]
munsell [0.5.0]
nlme [3.1-148]
nloptr [1.2.2.2]
nnet [7.3-14]
openssl [1.4.3]
openxlsx [4.2.3]
pbkrtest [0.4-8.6]
pillar [1.4.7]
pkgbuild [1.2.0]
pkgconfig [2.0.3]
pkgload [1.1.0]
png [0.1-7]
polynom [1.4-0]
praise [1.0.0]
prettyunits [1.1.1]
processx [3.4.5]
progress [1.2.2]
ps [1.5.0]
purrr [0.3.4]
quantreg [5.61]
rbibutils [2.0]
readr [1.4.0]
readxl [1.3.1]
rematch [1.0.1]
rematch2 [2.1.2]
reprex [0.3.0]
rio [0.5.16]
rlang [0.4.9]
rmarkdown [2.6]
rpart [4.1-15]
rprojroot [2.0.2]
rstatix [0.6.0]
rstudioapi [0.13]
rvest [0.3.6]
scales [1.1.1]
selectr [0.4-2]
snow [0.4-3]
sp [1.4-2]
statmod [1.4.35]
stringi [1.5.3]
stringr [1.4.0]
survival [3.2-3]
sys [3.4]
testthat [3.0.1]
tibble [3.0.4]
tidyr [1.1.2]
tidyselect [1.1.0]
tinytex [0.28]
utf8 [1.1.4]
vctrs [0.3.6]
viridis [0.5.1]
viridisLite [0.3.0]
waldo [0.2.3]
whisker [0.4]
withr [2.3.0]
xfun [0.19]
xml2 [1.3.2]
yaml [2.2.1]
zip [2.1.1]
Use `renv::snapshot()` to remove them from the lockfile.
The following package(s) are recorded in the lockfile but not installed:
_
MoDentify [krumsieklab/MoDentify@HEAD]
ggpubr [0.4.0]
tidyverse [1.3.0]
Use `renv::restore()` to install these packages.
The following package(s) are out of sync:
Package Lockfile Version Library Version
renv 0.12.3-64 0.12.3-64
Use `renv::snapshot()` to save the state of your library to the lockfile.
Use `renv::restore()` to restore your library from the lockfile.
# Packages ===========================
Library Source Lockfile Source Path Dependency
BH <NA> <NA> 1.72.0-3 CRAN <NA> <NA>
BiocGenerics <NA> <NA> 0.32.0 Bioconductor <NA> <NA>
BiocManager <NA> <NA> 1.30.10 CRAN <NA> <NA>
BiocParallel <NA> <NA> 1.20.1 Bioconductor <NA> <NA>
BiocVersion <NA> <NA> 3.10.1 Bioconductor <NA> <NA>
DBI <NA> <NA> 1.1.0 CRAN <NA> <NA>
Formula <NA> <NA> 1.2-4 CRAN <NA> <NA>
GeneNet <NA> <NA> 1.2.15 CRAN <NA> <NA>
Hmisc <NA> <NA> 4.4-2 CRAN <NA> <NA>
KernSmooth 2.23-16 CRAN <NA> <NA> [2] <NA>
MASS 7.3-51.5 CRAN 7.3-51.6 CRAN [2] <NA>
Matrix 1.2-18 CRAN 1.2-18 CRAN [2] <NA>
MatrixModels <NA> <NA> 0.4-1 CRAN <NA> <NA>
MoDentify <NA> <NA> 0.99.0 GitHub <NA> direct
R.methodsS3 <NA> <NA> 1.8.1 CRAN <NA> <NA>
R.oo <NA> <NA> 1.24.0 CRAN <NA> <NA>
R.utils <NA> <NA> 2.10.1 CRAN <NA> <NA>
R6 <NA> <NA> 2.5.0 CRAN <NA> <NA>
RColorBrewer <NA> <NA> 1.1-2 CRAN <NA> <NA>
RCy3 <NA> <NA> 2.6.3 Bioconductor <NA> <NA>
RJSONIO <NA> <NA> 1.3-1.4 CRAN <NA> <NA>
Rcpp <NA> <NA> 1.0.5 CRAN <NA> <NA>
RcppArmadillo <NA> <NA> 0.9.900.2.0 CRAN <NA> <NA>
RcppEigen <NA> <NA> 0.3.3.9.1 CRAN <NA> <NA>
Rdpack <NA> <NA> 2.1 CRAN <NA> <NA>
SparseM <NA> <NA> 1.78 CRAN <NA> <NA>
XML <NA> <NA> 3.99-0.3 CRAN <NA> <NA>
abind <NA> <NA> 1.4-5 CRAN <NA> <NA>
askpass <NA> <NA> 1.1 CRAN <NA> <NA>
assertthat <NA> <NA> 0.2.1 CRAN <NA> <NA>
backports <NA> <NA> 1.2.1 CRAN <NA> <NA>
base64enc <NA> <NA> 0.1-3 CRAN <NA> <NA>
blob <NA> <NA> 1.2.1 CRAN <NA> <NA>
boot 1.3-24 CRAN 1.3-25 CRAN [2] <NA>
brio <NA> <NA> 1.1.0 CRAN <NA> <NA>
broom <NA> <NA> 0.7.3 CRAN <NA> <NA>
callr <NA> <NA> 3.5.1 CRAN <NA> <NA>
car <NA> <NA> 3.0-9 CRAN <NA> <NA>
carData <NA> <NA> 3.0-4 CRAN <NA> <NA>
cellranger <NA> <NA> 1.1.0 CRAN <NA> <NA>
checkmate <NA> <NA> 2.0.0 CRAN <NA> <NA>
class 7.3-15 CRAN <NA> <NA> [2] <NA>
cli <NA> <NA> 2.2.0 CRAN <NA> <NA>
clipr <NA> <NA> 0.7.1 CRAN <NA> <NA>
cluster 2.1.0 CRAN 2.1.0 CRAN [2] <NA>
codetools 0.2-16 CRAN <NA> <NA> [2] <NA>
colorspace <NA> <NA> 2.0-0 CRAN <NA> <NA>
conquer <NA> <NA> 1.0.1 CRAN <NA> <NA>
corpcor <NA> <NA> 1.6.9 CRAN <NA> <NA>
corrplot <NA> <NA> 0.84 CRAN <NA> <NA>
cowplot <NA> <NA> 1.0.0 CRAN <NA> <NA>
cpp11 <NA> <NA> 0.2.4 CRAN <NA> <NA>
crayon <NA> <NA> 1.3.4 CRAN <NA> <NA>
curl <NA> <NA> 4.3 CRAN <NA> <NA>
data.table <NA> <NA> 1.13.4 CRAN <NA> <NA>
dbplyr <NA> <NA> 2.0.0 CRAN <NA> <NA>
desc <NA> <NA> 1.2.0 CRAN <NA> <NA>
diffobj <NA> <NA> 0.3.2 CRAN <NA> <NA>
digest <NA> <NA> 0.6.27 CRAN <NA> <NA>
dplyr <NA> <NA> 1.0.2 CRAN <NA> <NA>
ellipsis <NA> <NA> 0.3.1 CRAN <NA> <NA>
evaluate <NA> <NA> 0.14 CRAN <NA> <NA>
fansi <NA> <NA> 0.4.1 CRAN <NA> <NA>
farver <NA> <NA> 2.0.3 CRAN <NA> <NA>
fdrtool <NA> <NA> 1.2.15 CRAN <NA> <NA>
forcats <NA> <NA> 0.5.0 CRAN <NA> <NA>
foreign 0.8-75 CRAN 0.8-76 CRAN [2] <NA>
formatR <NA> <NA> 1.7 CRAN <NA> <NA>
fs <NA> <NA> 1.5.0 CRAN <NA> <NA>
futile.logger <NA> <NA> 1.4.3 CRAN <NA> <NA>
futile.options <NA> <NA> 1.0.1 CRAN <NA> <NA>
gbRd <NA> <NA> 0.4-11 CRAN <NA> <NA>
generics <NA> <NA> 0.1.0 CRAN <NA> <NA>
ggplot2 <NA> <NA> 3.3.2 CRAN <NA> <NA>
ggpubr <NA> <NA> 0.4.0 CRAN <NA> direct
ggrepel <NA> <NA> 0.9.0 CRAN <NA> <NA>
ggsci <NA> <NA> 2.9 CRAN <NA> <NA>
ggsignif <NA> <NA> 0.6.0 CRAN <NA> <NA>
glue <NA> <NA> 1.4.2 CRAN <NA> <NA>
graph <NA> <NA> 1.64.0 Bioconductor <NA> <NA>
gridExtra <NA> <NA> 2.3 CRAN <NA> <NA>
gtable <NA> <NA> 0.3.0 CRAN <NA> <NA>
haven <NA> <NA> 2.3.1 CRAN <NA> <NA>
highr <NA> <NA> 0.8 CRAN <NA> <NA>
hms <NA> <NA> 0.5.3 CRAN <NA> <NA>
htmlTable <NA> <NA> 2.1.0 CRAN <NA> <NA>
htmltools <NA> <NA> 0.5.0 CRAN <NA> <NA>
htmlwidgets <NA> <NA> 1.5.3 CRAN <NA> <NA>
httr <NA> <NA> 1.4.2 CRAN <NA> <NA>
igraph <NA> <NA> 1.2.6 CRAN <NA> <NA>
isoband <NA> <NA> 0.2.3 CRAN <NA> <NA>
jpeg <NA> <NA> 0.1-8.1 CRAN <NA> <NA>
jsonlite <NA> <NA> 1.7.2 CRAN <NA> <NA>
knitr <NA> <NA> 1.30 CRAN <NA> <NA>
labeling <NA> <NA> 0.4.2 CRAN <NA> <NA>
lambda.r <NA> <NA> 1.2.4 CRAN <NA> <NA>
lattice 0.20-38 CRAN 0.20-41 CRAN [2] <NA>
latticeExtra <NA> <NA> 0.6-29 CRAN <NA> <NA>
lifecycle <NA> <NA> 0.2.0 CRAN <NA> <NA>
lme4 <NA> <NA> 1.1-26 CRAN <NA> <NA>
longitudinal <NA> <NA> 1.1.12 CRAN <NA> <NA>
lubridate <NA> <NA> 1.7.9.2 CRAN <NA> <NA>
magrittr <NA> <NA> 2.0.1 CRAN <NA> <NA>
maptools <NA> <NA> 1.0-1 CRAN <NA> <NA>
markdown <NA> <NA> 1.1 CRAN <NA> <NA>
matrixStats <NA> <NA> 0.57.0 CRAN <NA> <NA>
mgcv 1.8-31 CRAN 1.8-31 CRAN [2] <NA>
mime <NA> <NA> 0.9 CRAN <NA> <NA>
minqa <NA> <NA> 1.2.4 CRAN <NA> <NA>
modelr <NA> <NA> 0.1.8 CRAN <NA> <NA>
munsell <NA> <NA> 0.5.0 CRAN <NA> <NA>
nlme 3.1-144 CRAN 3.1-148 CRAN [2] <NA>
nloptr <NA> <NA> 1.2.2.2 CRAN <NA> <NA>
nnet 7.3-12 CRAN 7.3-14 CRAN [2] <NA>
openssl <NA> <NA> 1.4.3 CRAN <NA> <NA>
openxlsx <NA> <NA> 4.2.3 CRAN <NA> <NA>
pbkrtest <NA> <NA> 0.4-8.6 CRAN <NA> <NA>
pillar <NA> <NA> 1.4.7 CRAN <NA> <NA>
pkgbuild <NA> <NA> 1.2.0 CRAN <NA> <NA>
pkgconfig <NA> <NA> 2.0.3 CRAN <NA> <NA>
pkgload <NA> <NA> 1.1.0 CRAN <NA> <NA>
png <NA> <NA> 0.1-7 CRAN <NA> <NA>
polynom <NA> <NA> 1.4-0 CRAN <NA> <NA>
praise <NA> <NA> 1.0.0 CRAN <NA> <NA>
prettyunits <NA> <NA> 1.1.1 CRAN <NA> <NA>
processx <NA> <NA> 3.4.5 CRAN <NA> <NA>
progress <NA> <NA> 1.2.2 CRAN <NA> <NA>
ps <NA> <NA> 1.5.0 CRAN <NA> <NA>
purrr <NA> <NA> 0.3.4 CRAN <NA> <NA>
quantreg <NA> <NA> 5.61 CRAN <NA> <NA>
rbibutils <NA> <NA> 2.0 CRAN <NA> <NA>
readr <NA> <NA> 1.4.0 CRAN <NA> <NA>
readxl <NA> <NA> 1.3.1 CRAN <NA> <NA>
rematch <NA> <NA> 1.0.1 CRAN <NA> <NA>
rematch2 <NA> <NA> 2.1.2 CRAN <NA> <NA>
renv 0.12.3-64 CRAN 0.12.3-64 GitHub [1] direct
reprex <NA> <NA> 0.3.0 CRAN <NA> <NA>
rio <NA> <NA> 0.5.16 CRAN <NA> <NA>
rlang <NA> <NA> 0.4.9 CRAN <NA> <NA>
rmarkdown <NA> <NA> 2.6 CRAN <NA> <NA>
rpart 4.1-15 CRAN 4.1-15 CRAN [2] <NA>
rprojroot <NA> <NA> 2.0.2 CRAN <NA> <NA>
rstatix <NA> <NA> 0.6.0 CRAN <NA> <NA>
rstudioapi <NA> <NA> 0.13 CRAN <NA> <NA>
rvest <NA> <NA> 0.3.6 CRAN <NA> <NA>
scales <NA> <NA> 1.1.1 CRAN <NA> <NA>
selectr <NA> <NA> 0.4-2 CRAN <NA> <NA>
snow <NA> <NA> 0.4-3 CRAN <NA> <NA>
sp <NA> <NA> 1.4-2 CRAN <NA> <NA>
spatial 7.3-11 CRAN <NA> <NA> [2] <NA>
statmod <NA> <NA> 1.4.35 CRAN <NA> <NA>
stringi <NA> <NA> 1.5.3 CRAN <NA> <NA>
stringr <NA> <NA> 1.4.0 CRAN <NA> <NA>
survival 3.1-8 CRAN 3.2-3 CRAN [2] <NA>
sys <NA> <NA> 3.4 CRAN <NA> <NA>
testthat <NA> <NA> 3.0.1 CRAN <NA> <NA>
tibble <NA> <NA> 3.0.4 CRAN <NA> <NA>
tidyr <NA> <NA> 1.1.2 CRAN <NA> <NA>
tidyselect <NA> <NA> 1.1.0 CRAN <NA> <NA>
tidyverse <NA> <NA> 1.3.0 CRAN <NA> direct
tinytex <NA> <NA> 0.28 CRAN <NA> <NA>
utf8 <NA> <NA> 1.1.4 CRAN <NA> <NA>
utils <NA> <NA> <NA> <NA> [2] indirect
vctrs <NA> <NA> 0.3.6 CRAN <NA> <NA>
viridis <NA> <NA> 0.5.1 CRAN <NA> <NA>
viridisLite <NA> <NA> 0.3.0 CRAN <NA> <NA>
[ reached 'max' / getOption("max.print") -- omitted 7 rows ]
[1]: /home/rstudio/renv_testing/renv/library/R-3.6/x86_64-pc-linux-gnu
[2]: /tmp/Rtmp7FuOEF/renv-system-library
# User Profile =======================
[no user profile detected]
# Settings ===========================
List of 7
$ external.libraries : chr(0)
$ ignored.packages : chr(0)
$ package.dependency.fields: chr [1:3] "Imports" "Depends" "LinkingTo"
$ r.version : chr(0)
$ snapshot.type : chr "implicit"
$ use.cache : logi TRUE
$ vcs.ignore.library : logi TRUE
# Options ============================
List of 2
$ renv.consent: logi TRUE
$ renv.verbose: logi TRUE
# Environment Variables ==============
HOME = /home/rstudio
LANG = en_US.UTF-8
R_LIBS = /usr/local/lib/R/site-library:/usr/local/lib/R/library:/usr/lib/R/library
R_LIBS_SITE =
R_LIBS_USER = /home/rstudio/renv_testing/renv/library/R-3.6/x86_64-pc-linux-gnu:/tmp/Rtmp7FuOEF/renv-system-library
RENV_DEFAULT_R_ENVIRON = <NA>
RENV_DEFAULT_R_ENVIRON_USER = <NA>
RENV_DEFAULT_R_LIBS = /usr/local/lib/R/site-library:/usr/local/lib/R/library:/usr/lib/R/library
RENV_DEFAULT_R_LIBS_SITE =
RENV_DEFAULT_R_LIBS_USER = /usr/local/lib/R/site-library
RENV_DEFAULT_R_PROFILE = <NA>
RENV_DEFAULT_R_PROFILE_USER = <NA>
RENV_PROJECT = /home/rstudio/renv_testing
# PATH ===============================
- /usr/lib/rstudio-server/bin
- /usr/local/sbin
- /usr/local/bin
- /usr/sbin
- /usr/bin
- /sbin
- /bin
# Cache ==============================
There are a total of 0 package(s) installed in the renv cache.
Cache path: "~/.local/share/renv/cache/v5/R-3.6/x86_64-pc-linux-gnu"