I'm trying to install the package gbm.auto via github, but the download does not seem to work. How can I solve this? I am working on a windows 10 Pro (R version 3.6.1, Rstudio version 1.2.5042). This is the error I get:
remotes::install_github("SimonDedman/gbm.auto")
Downloading GitHub repo SimonDedman/gbm.auto#master
√ checking for file 'C:\Users\Ststrubb\AppData\Local\Temp\RtmpOcwGGZ\remotes1d5c7c774f2a\SimonDedman-gbm.auto-96328bf/DESCRIPTION' ...
- preparing 'gbm.auto': (359ms)
√ checking DESCRIPTION meta-information ...
- checking for LF line-endings in source and make files and shell scripts
- checking for empty or unneeded directories
- looking to see if a 'data/datalist' file should be added
- building 'gbm.auto_1.2.4.tar.gz'
Installing package into ‘C:/Users/Ststrubb/Documents/R/win-library/3.6’
(as ‘lib’ is unspecified)
* installing *source* package 'gbm.auto' ...
** using staged installation
** R
Error in parse(outFile) :
C:/Users/Ststrubb/AppData/Local/Temp/RtmpALsbRt/R.INSTALL7320575e5a03/gbm.auto/R/gbm.valuemap.R:462:0: unexpected end of input
460: beep(8)} # notify user & close function
461:
^
ERROR: unable to collate and parse R files for package 'gbm.auto'
* removing 'C:/Users/***/Documents/R/win-library/3.6/gbm.auto'
Error: Failed to install 'gbm.auto' from GitHub:
(converted from warning) installation of package ‘C:/Users/***/AppData/Local/Temp/RtmpOcwGGZ/file1d5c40b85311/gbm.auto_1.2.4.tar.gz’ had non-zero exit status
I get the same error when I used
githubinstall or remotes::install_github.
Related
When I run the command install_github("chrchang/plink-ng", subdir="/2.0/cindex") in Rstudio, I get the following error message:
Downloading GitHub repo chrchang/plink-ng#HEAD
chrchang-plink-ng-b39d989/2.0/cindex/src/include: Can't create '\\\\?\\C:\\Users\\xxx\\AppData\\Local\\Temp\\Rtmp6PucTt\\remotes68581e00563b\\chrchang-plink-ng-b39d989\\2.0\\cindex\\src\\include'
chrchang-plink-ng-b39d989/2.0/pgenlibr/src/include: Can't create '\\\\?\\C:\\Users\\xxx\\AppData\\Local\\Temp\\Rtmp6PucTt\\remotes68581e00563b\\chrchang-plink-ng-b39d989\\2.0\\pgenlibr\\src\\include'
chrchang-plink-ng-b39d989/2.0/pgenlibr/src/libdeflate: Can't create '\\\\?\\C:\\Users\\xxx\\AppData\\Local\\Temp\\Rtmp6PucTt\\remotes68581e00563b\\chrchang-plink-ng-b39d989\\2.0\\pgenlibr\\src\\libdeflate'
chrchang-plink-ng-b39d989/2.0/pgenlibr/src/pgenlib_ffi_support.cpp: Can't create '\\\\?\\C:\\Users\\xxx\\AppData\\Local\\Temp\\Rtmp6PucTt\\remotes68581e00563b\\chrchang-plink-ng-b39d989\\2.0\\pgenlibr\\src\\pgenlib_ffi_support.cpp'
chrchang-plink-ng-b39d989/2.0/pgenlibr/src/pgenlib_ffi_support.h: Can't create '\\\\?\\C:\\Users\\xxx\\AppData\\Local\\Temp\\Rtmp6PucTt\\remotes68581e00563b\\chrchang-plink-ng-b39d989\\2.0\\pgenlibr\\src\\pgenlib_ffi_support.h'
chrchang-plink-ng-b39d989/2.0/pgenlibr/src/pvar_ffi_support.cpp: Can't create '\\\\?\\C:\\Users\\xxx\\AppData\\Local\\Temp\\Rtmp6PucTt\\remotes68581e00563b\\chrchang-plink-ng-b39d989\\2.0\\pgenlibr\\src\\pvar_ffi_support.cpp'
chrchang-plink-ng-b39d989/2.0/pgenlibr/src/pvar_ffi_support.h: Can't create '\\\\?\\C:\\Users\\xxx\\AppData\\Local\\Temp\\Rtmp6PucTt\\remotes68581e00563b\\chrchang-plink-ng-b39d989\\2.0\\pgenlibr\\src\\pvar_ffi_support.h'
chrchang-plink-ng-b39d989/2.0/pgenlibr/src/zstd: Can't create '\\\\?\\C:\\Users\\xxx\\AppData\\Local\\Temp\\Rtmp6PucTt\\remotes68581e00563b\\chrchang-plink-ng-b39d989\\2.0\\pgenlibr\\src\\zstd'
tar.exe: Error exit delayed from previous errors.
√ checking for file 'C:\Users\xxx\AppData\Local\Temp\Rtmp6PucTt\remotes68581e00563b\chrchang-plink-ng-b39d989\2.0\cindex/DESCRIPTION' ...
- preparing 'cindex':
√ checking DESCRIPTION meta-information ...
- cleaning src
- checking for LF line-endings in source and make files and shell scripts
- checking for empty or unneeded directories
- building 'cindex_0.2.tar.gz'
Installing package into ‘C:/Users/xxx/Documents/R/win-library/4.0’
(as ‘lib’ is unspecified)
* installing *source* package 'cindex' ...
** using staged installation
** libs
*** arch - i386
make: *** No rule to make target 'include/plink2_base.o', needed by 'cindex.dll'. Stop.
ERROR: compilation failed for package 'cindex'
* removing 'C:/Users/xxx/Documents/R/win-library/4.0/cindex'
错误: Failed to install 'cindex' from GitHub:
(由警告转换成)installation of package ‘C:/Users/xxx/AppData/Local/Temp/Rtmp6PucTt/file685860d615b0/cindex_0.2.tar.gz’ had non-zero exit status
此外: Warning message:
In utils::untar(tarfile, ...) :
‘tar.exe -xf "C:\Users\xxx\AppData\Local\Temp\Rtmp6PucTt\file68583f07ec.tar.gz" -C "C:/Users/xxx/AppData/Local/Temp/Rtmp6PucTt/remotes68581e00563b"’ returned error code 1*
install_github() on Windows 10 R does not seem to handle Git symlinks correctly. A workaround is to clone the repository and manually expand the symlinks in your copy.
I have been unsuccessful at installing the package 'HonestDiD' from Github. It says that the package in question 'had non-zero exit status.' I followed the instructions given here. Any idea how to solve this issue? Here is the code/full error message.
devtools::install_github("asheshrambachan/HonestDiD")
Downloading GitHub repo asheshrambachan/HonestDiD#HEAD
These packages have more recent versions available.
It is recommended to update all of them.
Which would you like to update?
1: All
2: CRAN packages only
3: None
Enter one or more numbers, or an empty line to skip updates:3
√ checking for file 'C:\Users\louis\AppData\Local\Temp\RtmpkZzlr8\remotes43401e3a797\asheshrambachan-HonestDiD-1723b17/DESCRIPTION' ...
- preparing 'HonestDiD': (601ms)
√ checking DESCRIPTION meta-information
- checking for LF line-endings in source and make files and shell scripts
- checking for empty or unneeded directories
- looking to see if a 'data/datalist' file should be added
- building 'HonestDiD_0.1.0.tar.gz'
Installing package into ‘C:/Users/louis/OneDrive/Documents/R/win-library/3.6’
(as ‘lib’ is unspecified)
* installing *source* package 'HonestDiD' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Error: (converted from warning) package 'CVXR' was built under R version 3.6.3
Execution halted
ERROR: lazy loading failed for package 'HonestDiD'
* removing 'C:/Users/louis/OneDrive/Documents/R/win-library/3.6/HonestDiD'
Error: Failed to install 'HonestDiD' from GitHub:
(converted from warning) installation of package ‘C:/.../HonestDiD_0.1.0.tar.gz’ had non-zero exit status
I've been attempting to install the rethinking package for R. I've downloaded the prerequisites, including rstan, but am still getting the same error message. My code is as follows:
library(devtools)
install_github("rmcelreath/rethinking")
I keep getting this output:
Downloading GitHub repo rmcelreath/rethinking#master
Skipping 1 packages ahead of CRAN: StanHeaders
√ checking for file 'C:\Users\noahj\AppData\Local\Temp\RtmpK0JHwE\remotes2a60431d781f\rmcelreath-rethinking-f393f30/DESCRIPTION' ...
- preparing 'rethinking': (1.6s)
√ checking DESCRIPTION meta-information ...
- checking for LF line-endings in source and make files and shell scripts (725ms)
- checking for empty or unneeded directories
- looking to see if a 'data/datalist' file should be added
- building 'rethinking_2.00.tar.gz' (699ms)
Installing package into ‘C:/Users/noahj/Documents/R/win-library/3.6’
(as ‘lib’ is unspecified)
* installing *source* package 'rethinking' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Error: (converted from warning) package 'rstan' was built under R version 3.6.3
Execution halted
ERROR: lazy loading failed for package 'rethinking'
* removing 'C:/Users/noahj/Documents/R/win-library/3.6/rethinking'
Error: Failed to install 'rethinking' from GitHub:
(converted from warning) installation of package ‘C:/Users/noahj/AppData/Local/Temp/RtmpK0JHwE/file2a605bda3304/rethinking_2.00.tar.gz’ had non-zero exit status
Thank you to anyone with any insights and help!
> library(devtools)
Download required package: usethis
Warning messages:
1: package ‘devtools' was built under R version 3.5.3
2: package ‘usethis’ was built under R version 3.5.3
> install_github("kthohr/BMR",force=TRUE)
Downloading GitHub repo kthohr/BMR#master
√ checking for file 'C:\Users\Asus\AppData\Local\Temp\RtmpqkzAt0\remotes4b403a3737ba\kthohr-BMR-63565cd/DESCRIPTION' ...
- preparing 'BMR': (3.1s)
√ checking DESCRIPTION meta-information ...
- cleaning src
- checking for LF line-endings in source and make files and shell scripts (1.1s)
- checking for empty or unneeded directories (362ms)
- looking to see if a 'data/datalist' file should be added
- building 'BMR_0.11.0.tar.gz'
Installing package into ‘C:/Users/Asus/Documents/R/win-library/3.5’
(as ‘lib’ is unspecified)
* installing *source* package 'BMR' ...
** libs
Ошибка: (конвертировано из предупреждения) this package has a non-empty 'configure.win' file,
so building only the main architecture
* removing 'C:/Users/Asus/Documents/R/win-library/3.5/BMR'
In R CMD INSTALL
Error: Failed to install 'BMR' from GitHub:
(converted from warning) installation of package ‘C:/Users/Asus/AppData/Local/Temp/RtmpqkzAt0/file4b4017187131/BMR_0.11.0.tar.gz’ had non-zero exit status
Try this:
install.packages("devtools")
library(devtools)
install_github("kthohr/BMR",force=TRUE)
Please install Rtolls direct its path on R. Then use the following codes.
install.packages("devtools")
library(devtools)
install_github("kthohr/BMR")
library(BMR)
find_rtools()
This to check if rtolls is installed.
If still not working please reinstall R, Rstudio and Rtools then again try running it. It worked in my case.
To check if the package is installed try opening on of the data sets included in the package.
data(BMRMCData)
I am currently trying to install some packages off of GitHub, but I keep on getting this fatal error. I think it has something to do with the file destination, but I am unsure. Any advice would be appreciated!
> devtools::install_github("hrbrmstr/albersusa")
Downloading GitHub repo hrbrmstr/albersusa#master
√ checking for file 'C:\Users\FirstName Surname\AppData\Local\Temp\RtmpeqCuBA\remotes51a46de62be1\hrbrmstr-albersusa-5b933bf/DESCRIPTION' (489ms)
- preparing 'albersusa':
√ checking DESCRIPTION meta-information ...
- checking for LF line-endings in source and make files and shell scripts
- checking for empty or unneeded directories
- building 'albersusa_0.3.1.tar.gz'
Installing package into ‘C:/Users/FirstName Surname/Documents/R/win-library/3.6’
(as ‘lib’ is unspecified)
* installing *source* package 'albersusa' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Fatal error: cannot open file 'C:\Users\FirstName': No such file or directory
ERROR: lazy loading failed for package 'albersusa'
* removing 'C:/Users/FirstName Surname/Documents/R/win-library/3.6/albersusa'
Error in i.p(...) :
(converted from warning) installation of package ‘C:/Users/FirstName Surname/AppData/Local/Temp/RtmpeqCuBA/file51a45f6e3a8b/albersusa_0.3.1.tar.gz’ had non-zero exit status
The packages should be installed into ‘C:/Users/FirstName Surname/Documents/R/win-library/3.6’ as it says it is doing, however it gives the fatal error when it encounters: 'C:\Users\FirstName' which is different.
Edit: Windows 10, R-3.6.0, RStudio
Thanks!
Upgrading the r package to 4.0.1 version solved this issue