I've already updated r, rtools and rstudio. But it seems unable to find make.exe, while in C:\rtools40\usr\bin\make.exe it exists.
> find_rtools()
[1] TRUE
> Sys.which('make')
make
""
> R.Version()$version.string
[1] "R version 4.0.3 (2020-10-10)"
Rtools is rtools40-x86_64.exe downloaded from https://cran.r-project.org/bin/windows/Rtools/.
All packages are up to date (Rstudio told me so).
And when I'm trying to install a package built with Rcpp, it returns
Warning in system(cmd) : 'make' not found
ERROR: compilation failed for package 'testpkg'
and the installation fails. Is there any way I can deal with it?
I installed the package required and set my library using install.packages("bipartite",lib="C:/Users/Owner/Documents/Rwork")
When i finish installing package, it says the downloaded binary packages are in C:\Users\Owner\AppData\Local\Temp\RtmpuGqI8Q\downloaded_packages
I checked my directory using dir(), all the things in package bipartite are in C:/Users/Owner/Documents/Rwork
When i try to load the package using this command, library("bipartite", lib.loc="C:/Users/Owner/Documents/Rwork") the error appear
Error: package ‘vegan’ required by ‘bipartite’ could not be found
In addition: Warning message:
package ‘bipartite’ was built under R version 3.3.3
Checked my dir() again and it stated that there is a "vegan' in my working directory
Tried to look at .libPaths() it show this
[1] "C:/Users/Owner/Documents/R/win-library/3.3"
[2] "C:/Program Files/R/R-3.3.2/library"
How do i solve this? Do i need to change the library path?
I could reproduce your error. It looks like R does not install the dependencies. This works however:
library(permute, lib.loc = "C:/Users/Owner/Documents/Rwork")
library(vegan, lib.loc = "C:/Users/Owner/Documents/Rwork")
library(statnet.common, lib.loc = "C:/Users/Owner/Documents/Rwork")
library(network, lib.loc = "C:/Users/Owner/Documents/Rwork")
library(sna, lib.loc = "C:/Users/Owner/Documents/Rwork")
library(bipartite, lib.loc = "C:/Users/Owner/Documents/Rwork")
It's just a workaround. Maybe this can also help:
library(devtools)
load_all("C:/Users/Owner/Documents/Rwork")
Please give me solution..
if (!require('SnowballC',character.only=TRUE))
install.packages('https://cran.r-project.org/bin/windows/contrib/3.4/SnowballC_0.5.1.zip', repos=NULL, dep=TRUE);
library('SnowballC')
when i use this command..I am getting message like
Warning message: In library(package, lib.loc = lib.loc, character.only
= TRUE, logical.return = T RUE, : there is no package called 'SnowballC' Warning message: package 'SnowballC' was built under R
version 3.3.1
Binary package compiled with different version of R
Warning message:
package ‘SnowballC’ was built under R version 3.3.1
By default, R will install pre-compiled versions of packages if they are found. If the version of R under which the package was compiled does not match your installed version of R you will get the message above.
The solution is to download the package source and install by hand with e.g.:
#File name might be different
R CMD INSTALL SnowballC_0.5.1.tar.gz
Source: http://mazamascience.com/WorkingWithData/?p=1185
I get the following error message in the console when opening Rstudio :
Error installing package: Error: ERROR: no packages specified
The filename, directory name, or volume label syntax is incorrect.
My R version is 3.1.1
This is the error you get from calling install.packages with no package specified.
> install.packages()
Error in install.packages() : no packages were specified
You might want to check whether something like that is included in your Rprofile.site file.
I am trying to use rmarkdown, within Rstudio (0.98.953) on a PC, for the first time. I have upgraded to the latest versions of R (3.1.1) and R studio. The output from sessionInfo() is provided at the end of this question.
As I understand it rmarkdown should be included within Rstudio. However, when I select to create a markdown document in Rstudio, a dialog box pops up saying additional packages need to be installed. The installation of rmarkdown always then fails, with the following message:
Installing package into '\\cfsk18.campus.gla.ac.uk/SSD_Home_Data_X/jm383x/My Documents/R/win-library/3.1'
(as 'lib' is unspecified)
* installing *source* package 'rmarkdown' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
*** arch - i386
Warning in library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE) :
there is no package called 'rmarkdown'
Error: loading failed
Execution halted
*** arch - x64
Warning in library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE) :
there is no package called 'rmarkdown'
Error: loading failed
Execution halted
ERROR: loading failed for 'i386', 'x64'
* removing '\\cfsk18.campus.gla.ac.uk/SSD_Home_Data_X/jm383x/My Documents/R/win- library/3.1/rmarkdown'
Warning messages:
1: running command '"C:/PROGRA~1/R/R-31~1.1/bin/x64/R" CMD INSTALL -l "\\cfsk18.campus.gla.ac.uk\SSD_Home_Data_X\jm383x\My Documents\R\win-library\3.1" "C:/PROGRA~1/RStudio/R/packages/rmarkdown_0.2.49_047a80058bb4ef0b142196013d1c4dd8870d4dd9.tar.gz"' had status 1
2: In utils::install.packages("C:/Program Files/RStudio/R/packages/rmarkdown_0.2.49_047a80058bb4ef0b142196013d1c4dd8870d4dd9.tar.gz", :
installation of package 'C:/PROGRA~1/RStudio/R/packages/rmarkdown_0.2.49_047a80058bb4ef0b142196013d1c4dd8870d4dd9.tar.gz' had non-zero exit status
I assume this is something to do with using a managed desktop in my place of work. However this is not usually a problem as far fewer restrictions are placed on these machines than is usually the case, and all other packages, software etc tend to work.
I have also tried installing rmarkdown directly from github. Again the installer cannot identify the package rmarkdown itself.
What is likely to be the cause of the error?
SessionInfo output:
R version 3.1.1 (2014-07-10)
Platform: x86_64-w64-mingw32/x64 (64-bit)
locale:
[1] LC_COLLATE=English_United Kingdom.1252 LC_CTYPE=English_United Kingdom.1252 LC_MONETARY=English_United Kingdom.1252
[4] LC_NUMERIC=C LC_TIME=English_United Kingdom.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] tools_3.1.1
Attempt to install directly from github repo:
devtools::install_github("rstudio/rmarkdown")
Installing github repo rmarkdown/master from rstudio
Downloading master.zip from https://github.com/rstudio/rmarkdown/archive/master.zip
Installing package from C:\Users\jm383x\AppData\Local\Temp\RtmpINmLRv/master.zip
Installing rmarkdown
Installing dependencies for rmarkdown:
httpuv
Installing package into ‘\\cfsk18.campus.gla.ac.uk/SSD_Home_Data_X/jm383x/My Documents/R/win-library/3.1’
(as ‘lib’ is unspecified)
trying URL 'http://cran.rstudio.com/bin/windows/contrib/3.1/httpuv_1.3.0.zip'
Content type 'application/zip' length 857357 bytes (837 Kb)
opened URL
downloaded 837 Kb
package ‘httpuv’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in
C:\Users\jm383x\AppData\Local\Temp\RtmpINmLRv\downloaded_packages
"C:/PROGRA~1/R/R-31~1.1/bin/x64/R" --vanilla CMD INSTALL \
"C:\Users\jm383x\AppData\Local\Temp\RtmpINmLRv\devtoolscec10833677\rmarkdown-master" \
--library="\\cfsk18.campus.gla.ac.uk/SSD_Home_Data_X/jm383x/My Documents/R/win- library/3.1" --install-tests
* installing *source* package 'rmarkdown' ...
** R
** inst
** tests
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
*** arch - i386
Warning in library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE) :
there is no package called 'rmarkdown'
Error: loading failed
Execution halted
*** arch - x64
Warning in library(pkg_name, lib.loc = lib, character.only = TRUE, logical.return = TRUE) :
there is no package called 'rmarkdown'
Error: loading failed
Execution halted
ERROR: loading failed for 'i386', 'x64'
* removing '\\cfsk18.campus.gla.ac.uk/SSD_Home_Data_X/jm383x/My Documents/R/win- library/3.1/rmarkdown'
Try running this code to get the latest version of the rmarkdown package, which should solve the issue:
install.packages("rmarkdown", repos = "https://cran.revolutionanalytics.com")
The issue is that the RStudio IDE looks at a static CRAN snapshot that was taken before the rmarkdown package was updated. For more information, see this link: https://groups.google.com/forum/#!topic/rropen/Kgg8z6FF40I
I wonder if the problem is the space in the path shown for the --library option to your install_github command. I know you say you've installed packages OK before, but my setup sounds just slike yours and rmarkdown works for me. I have RStudio 0.98.953 on Win7, which is a very locked-down corporate machine. I've coerced it into letting me install R packages by setting the env variable R_LIBS to my network home drive. Loading packages is slow, but I have no choice because I cannot write to the C: drive. So, my install_github command has --library="H:/Rlib". Your path has "My Documents" embedded in it. I'm not positive that's the problem, but my github installation of "rstudio/rmarkdown" did succeed. When I do File -> New File -> R Markdown, followed by a press of the "Knit HTML" button, that also completes successfully.
The RStudio github page https://github.com/rstudio/rmarkdown#installation makes it sound like manual installation of rmarkdown in RStudio isn't required, but I did it anyway because I don't always use R through RStudio. Sorry, but I didn't test RStudio by making a new R Markdown file before I manually installed the package.
The RStudio blog post http://blog.rstudio.org/2014/06/18/r-markdown-v2/ says clearly that the rmarkdown package is intended to replace the previous markdown package. The rmarkdown package does not yet appear to be on CRAN, so install_github is necessary.
The best that worked for me is to quit Rstuido, then install rmarkdown package in the base R (not any IDE) and restarting Rstudio.
I am on Windows 10, R 3.3.1, Rstudio Version 0.99.903