I have a problem with installing package (gahgu95av2.db) in R. How can I deal with this? Please see below
It seems that gahgu95av2.db has been dropped from Bioconductor versions >3.3. However you can still install the package from source.
Download the source file
Go to the folder with gahgu95av2.db_2.0.1.tar.gz; then open an R terminal and do
install.packages(
"gahgu95av2.db_2.0.1.tar.gz",
repos = NULL,
type = "source");
Related
So I am going to do some survivalsvm process and I need the mlr3extralearners package from GitHub. When I tried to install it locally using the tar.gz file, it said
Execution halted
Warning in install.packages: installation of package had non-zero exit status
I also tried to use the zip file, and it said
install.packages("C:/Users/Ivan/Downloads/mlr3extralearners-0.5.49.zip", repos = NULL, type = "win.binary", lib="C:/R-4.2.1/library")
then nothing happened.
I also tried using devtools::install_github("mlr-org/mlr3extralearners"), but the output was the same when I used the tar.gz file. When I checked in my library, I already have the mlr3extralearners package, but when I call it using library(mlr3extralearners), it does not work. Does anyone know how to solve this? Any help is appreciated.
https://rdrr.io/github/mlr-org/mlr3extralearners/
I believe this should work for you:
Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("mlr-org/mlr3extralearners")
A friend sent me along this great tutorial on webscraping The New York Times with R. I would really love to try it. However, the first step is to install a package called [RJSONIO][2] from source.
I know R reasonably well, but I have no idea how to install a package from source.
I'm running macOS (OS X).
If you have the file locally, then use install.packages() and set the repos=NULL:
install.packages(path_to_file, repos = NULL, type="source")
Where path_to_file would represent the full path and file name:
On Windows it will look something like this: "C:\\RJSONIO_0.2-3.tar.gz".
On UNIX it will look like this: "/home/blah/RJSONIO_0.2-3.tar.gz".
Download the source package, open Terminal.app, navigate to the directory where you currently have the file, and then execute:
R CMD INSTALL RJSONIO_0.2-3.tar.gz
Do note that this will only succeed when either: a) the package does not need compilation or b) the needed system tools for compilation are present. See: R for Mac OS X
You can install directly from the repository (note the type="source"):
install.packages("RJSONIO", repos = "http://www.omegahat.org/R", type="source")
A supplementarily handy (but trivial) tip for installing older version of packages from source.
First, if you call "install.packages", it always installs the latest package from repo. If you want to install the older version of packages, say for compatibility, you can call install.packages("url_to_source", repo=NULL, type="source"). For example:
install.packages("http://cran.r-project.org/src/contrib/Archive/RNetLogo/RNetLogo_0.9-6.tar.gz", repo=NULL, type="source")
Without manually downloading packages to the local disk and switching to the command line or installing from local disk, I found it is very convenient and simplify the call (one-step).
Plus: you can use this trick with devtools library's dev_mode, in order to manage different versions of packages:
Reference: doc devtools
From CRAN, you can install directly from a GitHub repository address. So if you want the package at https://github.com/twitter/AnomalyDetection, using
library(devtools)
install_github("twitter/AnomalyDetection")
does the trick.
In addition, you can build the binary package using the --binary option.
R CMD build --binary RJSONIO_0.2-3.tar.gz
I just installed R studio and I was trying to install rmarkdown. However, I got the error as below. I unchecked the box ''Tools -> Global Options -> Packages -> Use secure download method for HTTP'' as someone suggested. No help. I tried other packages, I got the same error.
You should remove the package and reinstall it using dependencies = TRUE:
remove.packages("rmarkdown")
install.packages("rmarkdown", dependencies = TRUE)
library(rmarkdown)
Output:
Warning message:
package ‘rmarkdown’ was built under R version 4.1.2
I had the same issue and it was due to the newest version of the toolboxes include the names is under new package names. Go to the URL https://cran.rstudio.com/src/contrib/PACKAGES and search for "rmarkdown". Find the package name and try to install that instead. It's like a .zip file that includes several packages to your library. Try install.packages("accucor"). It worked for me at least, and then try to install the rmarkdown package.
I am trying to install the R package robCompositions but keep getting error messages. I have tried the following so far.
standard install
install.packages("robCompositions")
github install as suggested by the package maintainer (https://github.com/matthias-da/robCompositions)
library(devtools)
install_github("matthias-da/robCompositions", dependencies = TRUE)
download package and install from the package archive file (.zip, .tar, .gz)
unzip the downloaded package and run standard install
install.packages("C:/Users/SUHAS/Desktop/robCompositions_2.3.0", type="source", repos = NULL)
install r tools and then install package using standard install (https://cran.r-project.org/bin/windows/Rtools/)
install.rtools()
writeLines('PATH="${RTOOLS40_HOME}\\usr\\bin;${PATH}"', con = "~/.Renviron")
Sys.which("make")
## "C:\\rtools40\\usr\\bin\\make.exe"
install.packages("robCompositions", type = "source")
Any suggestions on how to resolve this issue would be much appreciated.
I am running R version R-4.0.4
First, apologies this is an answer and not a comment - I think it should be a comment but I don't yet have enough reputation points to comment.
I had a very similar problem. When researching it, I came across this page: https://cran.r-project.org/web/packages/robCompositions/index.html. It looks like robCompositions has been removed from CRAN, and the reason for that is a dependency, sROC, has been archived? I haven't yet come up with a workaround (I guess I'm hoping it will come back onto CRAN at some point soon!)
I am trying to install the package ‘RGoogleTrends’ in R but it says package ‘RGoogleTrends’ is not available (for R version 2.15.2). Any help in this regard will be highly appreciated.
Whilst it may not be available via install.package('RGoogleTrends', repos = "http://www.omegahat.org/R", type = "source"), you can download the package tar file http://www.omegahat.org/RGoogleTrends/RGoogleTrends_0.2-1.tar.gz and install from
the downloaded file, something like
install.packages("~/Downloads/RGoogleTrends_0.2-1.tar.gz", repos = NULL, type = "source")
replacing the path with the path on your system.
Note that RGoogleTrends imports the packages
RCurl, RSQLite, DBI
You may need to separately install these packages (with repos set to an appropriate non NULL value)