When installing this package in R 4.2.1
install.packages("MKmisc")
I have this output
Installing package into ‘C:/Users/blahblah/AppData/Local/R/win-library/4.2’
(as ‘lib’ is unspecified)
Warning in install.packages :
dependency ‘limma’ is not available
trying URL 'https://cran.rstudio.com/bin/windows/contrib/4.2/MKmisc_1.8.zip'
Content type 'application/zip' length 769544 bytes (751 KB)
downloaded 751 KB
package ‘MKmisc’ successfully unpacked and MD5 sums checked
It does not work as we need to download the package limma so let's do it
install_github("cran/limma")
However it gives an error and the MKmisc package is still not working
What should I do to handle this problem?
"limma" can be installed using BiocManager.
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("limma")
install.packages("MKmisc")
# * DONE (MKmisc)
# The downloaded source packages are in
# ‘/tmp/Rtmphwh6rY/downloaded_packages’
Related
I am trying to install 'gplots' in R 3.4.4, however I keep getting the following error:
install.packages("gplots")
Installing package into ‘/home/u1983390/R/x86_64-pc-linux-gnu-library/3.4’
(as ‘lib’ is unspecified)
Warning: dependency ‘caTools’ is not available
trying URL 'https://cloud.r-project.org/src/contrib/gplots_3.0.3.tar.gz'
Content type 'application/x-gzip' length 516153 bytes (504 KB)
==================================================
downloaded 504 KB
ERROR: dependency ‘caTools’ is not available for package ‘gplots’
* removing ‘/home/u1983390/R/x86_64-pc-linux-gnu-library/3.4/gplots’
The downloaded source packages are in
‘/tmp/Rtmplw9pSu/downloaded_packages’
Warning message:
In install.packages("gplots") :
installation of package ‘gplots’ had non-zero exit status
> install.packages('caTools')
Installing package into ‘/home/u1983390/R/x86_64-pc-linux-gnu-library/3.4’
(as ‘lib’ is unspecified)
Warning message:
package ‘caTools’ is not available (for R version 3.4.4)
I believe this can be solved by installing a version of caTools compatible with R 3.4.4 following this method. However, I cannot find where older versions of caTools are (I have looked in the CRAN archive).
Would anybody be able to direct me to an earlier version, or does anyone know a different method for instaling gplots?
Cheers,
Jamie
After install.packages("caret") getting below error:
Installing package into ‘...../R/win-library/3.4’
(as ‘lib’ is unspecified)
also installing the dependencies ‘rlang’, ‘recipes’
There are binary versions available but the source versions are later:
binary source needs_compilation
rlang 0.3.4 0.4.0 TRUE
recipes 0.1.5 0.1.6 FALSE
caret 6.0-81 6.0-84 TRUE
Binaries will be installed
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/rlang_0.3.4.zip'
Content type 'application/zip' length 1080437 bytes (1.0 MB)
downloaded 1.0 MB
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.4/caret_6.0-81.zip'
Content type 'application/zip' length 5392174 bytes (5.1 MB)
downloaded 5.1 MB
package ‘rlang’ successfully unpacked and MD5 sums checked
Warning in install.packages :
cannot remove prior installation of package ‘rlang’
package ‘caret’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in
.........\Temp\RtmpkJG4l1\downloaded_packages
installing the source package ‘recipes’
trying URL 'https://cran.rstudio.com/src/contrib/recipes_0.1.6.tar.gz'
Content type 'application/x-gzip' length 968331 bytes (945 KB)
downloaded 945 KB
ERROR: dependency 'rlang' is not available for package 'recipes'
* removing 'C:/Users/PBiradarP/Documents/R/win-library/3.4/recipes'
In R CMD INSTALL
Warning in install.packages :
running command '"C:/PROGRA~1/R/R-34~1.4/bin/x64/R" CMD INSTALL -l "......\R\win-library\3.4"
...../Temp\RtmpkJG4l1/downloaded_packages/recipes_0.1.6.tar.gz' had status 1
Warning in install.packages :
installation of package ‘recipes’ had non-zero exit status
I have tried and installed "rlang" package also. Its dependent on "recepies" package so again downloaded that too...
getting this message after installing this.
:Warning in install.packages :
package ‘recepies’ is not available (for R version 3.4.4)
I need to load caret package to be installed.
If you are using Windows, try this:
Add your library to libpaths; see this answer. After that try installing packages; see this answer:
install.packages("caret", dependencies=TRUE, type="win.binary")
recently I've changed a computer into a new one and suddenly I cannot install Bioconductor. I used this code, and this is what I get:
source("https://bioconductor.org/biocLite.R")
Installing package into ‘\\uniwa.uwa.edu.au/userhome/students8/21891458/My Documents/R/win-library/3.5’
(as ‘lib’ is unspecified)
trying URL 'https://bioconductor.org/packages/3.7/bioc/bin/windows/contrib/3.5/BiocInstaller_1.30.0.zip'
Content type 'application/zip' length 102191 bytes (99 KB)
downloaded 99 KB
package ‘BiocInstaller’ successfully unpacked and MD5 sums checked
Warning in install.packages :
cannot remove prior installation of package ‘BiocInstaller’
The downloaded binary packages are in
C:\Users\21891458\AppData\Local\Temp\Rtmp2DZpRQ\downloaded_packages
'biocLite.R' failed to install 'BiocInstaller', use 'install.packages("BiocInstaller",
repos="https://bioconductor.org/packages/3.7/bioc")' or 'install.packages("BiocInstaller",
repos="http://bioconductor.org/packages/3.7/bioc")'
The problem is it doesn't install it. I tried removing Bioconductor, I tried removing BiocInstaller and I tried even reinstalling Rstudio. None of this helped. What am I doing wrong?
I am trying to install mxnet for use with R Studio on my Windows 10 laptop.
I used these instuctions:
install.packages("drat", repos="https://cran.rstudio.com")
drat:::addRepo("dmlc")
install.packages("mxnet")
But when I try this:
require(mxnet)
I get the error message:
Loading required package: mxnet
Error : object ‘combine_edges’ is not exported by 'namespace:DiagrammeR'
Here is the complete console:
> install.packages("drat", repos = "https://cran.rstudio.com")
Installing package into ‘C:/Users/bill_/Documents/R/win-library/3.3’
(as ‘lib’ is unspecified)
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/drat_0.1.2.zip'
Content type 'application/zip' length 73095 bytes (71 KB)
downloaded 71 KB
package ‘drat’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in
C:\Users\bill_\AppData\Local\Temp\RtmpIDZk6c\downloaded_packages
> drat:::addRepo("dmlc")
> install.packages("mxnet")
Installing package into ‘C:/Users/bill_/Documents/R/win-library/3.3’
(as ‘lib’ is unspecified)
trying URL 'https://dmlc.github.io/drat/bin/windows/contrib/3.3/mxnet_0.7.zip'
Content type 'application/zip' length 5196542 bytes (5.0 MB)
downloaded 5.0 MB
package ‘mxnet’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in
C:\Users\bill_\AppData\Local\Temp\RtmpIDZk6c\downloaded_packages
> require(mxnet)
Loading required package: mxnet
Error : object ‘combine_edges’ is not exported by 'namespace:DiagrammeR'
>
Can anyone help?
Thanks in advance.
SOLUTION FOUND PER AXEMAN'S SUGGESTION...
# version 0.9.0 of DiagrammeR won't work with mxnet at this time (20170104)
require(devtools)
install_version("DiagrammeR", version = "0.8.1", repos = "http://cran.us.r-project.org")
With latest repo, you should be able to complete installation. They have removed references to "combine_edges" which was removed from latest DiagrammeR.
I am trying to install Devtools into Rstudio. I was using Rgui, but decided to use Rstudio becuase it seems to be easier. I able to get DevTools on Rgui, but not RStudio.
Basicly. the library on Rstudio does not have DEVtools installed and I am having problems. Any ideas?
I tried the install.packages("devtools") states it is install in y computer, but does not show in the library. I tried GitHub. did not wok either.
install.packages("devtools")
Installing package into ‘C:/Users/Steven/Documents/R/win-library/3.2’
(as ‘lib’ is unspecified)
trying
URL 'https://cran.rstudio.com/bin/windows/contrib/3.2/devtools_1.10.0.zip'
Content type 'application/zip' length 391482 bytes (382 KB)
downloaded 382 KB
package ‘devtools’ successfully unpacked and MD5 sums checked
Warning in install.packages :
cannot remove prior installation of package ‘devtools’
The downloaded binary packages are in
C:\Users\Steven\AppData\Local\Temp\RtmpkxtbPl\downloaded_packages
However, I do Library(devtools) states Error in library(devtools) : there is no package called ‘devtool