Murat DELMAN
2023-Aug-04 07:13 UTC
[R] Technical Help Request for "Version Differences" (i.e., CYTOFKIT package)
Dear Ms./Mr.,
I sent an email to this email address from my institutional address
muratdelman at iyte.edu.tr, but could not make sure if my email reached you
because sometimes emails are not delivered to the target due to
server issues and country-related limitations. I wanted to send you the
same email via my Gmail account.
If the email text and codes below are not properly displayed, you can
download the attached Word file, which has exactly the same content.
I am a cytometrist and microscopist at Izmir Institute of Technology,
Integrated Research Center. I operate a cytometer and fluorescence
microscope to acquire data from our researchers? samples and then give them
analyzed data. I need to dive into bulk data to present all of the
information in the sample. To do this, I have recently been trying to
develop my skills in R, RStudio, and Cytofkit package for cytometry (flow,
spectral, mass, imaging mass cytometry) data analysis. I am new in this
area and must learn R for data analysis.
May I request help from you or one of your assistants who is competent in
R, RStudio, and R packages with the installation issues caused by ?*version
differences*? between R itself, R packages, and their dependencies? I
really had to send this email to you anymore, because I could not run the
package ?Cytofkit? and find a solution on the internet.
It has been nearly 2 weeks since I have been trying to solve the errors and
warnings. I am in a vicious circle and cannot move forward anymore. This is
why I needed help from an expert competent in R programming.
I tried to use the renv package, but I could not move forward because I am
not competent in R.
I explained the errors that I faced during the installation below.
I have two computers, both operating Windows 10, 64-bit.
I installed R 3.5.*2* on the desktop (Windows in English) and R 3.5.*0* on
the laptop (Windows in Turkish).
I know that you are very busy with your work, but may you (or your
assistant) help me by informing me *how to install consistent versions of
R, RStudio, and packages/dependencies* (for example, Cytofkit, ggplot2,
Rtools, devtools, plyr, shiny, GUI)?
I guess I will need exact web page links "*in* *an orderly manner" to
download* the correct versions of everything.
I would appreciate it if you could advise me or forward this email to one
of your assistants or experts.
I really appreciate any help you can provide.
Kind Regards
*Please find the technical details below;*
I used the installation order listed below;
I downloaded R 3.5.0 and R 3.5.2 using the link and directory below.
Link: https://www.freestatistics.org/cran/
Directory: Download R for Windows > install R for the first time >
Previous
releases > R 3.5.2 (December, 2018) or R 3.5.0
I downloaded RStudio from the link below;
https://posit.co/download/rstudio-desktop/
I downloaded packages via either
https://cran.rstudio.com/bin/windows/contrib/r-devel/ or the ?install
function? tab in RStudio.
Rtools : https://cran.r-project.org/bin/windows/Rtools/
Devtools : https://cran.r-project.org/web/packages/devtools/index.html
ggplot2 : https://cran.r-project.org/web/packages/ggplot2/index.html
https://ggplot2.tidyverse.org/
https://cran.r-project.org/web/packages/ggplot2/ggplot2.pdf
plyr : https://cran.r-project.org/web/packages/plyr/index.html
shiny : https://cran.r-project.org/web/packages/shiny/index.html
https://shiny.posit.co/r/getstarted/shiny-basics/lesson1/index.html
https://github.com/rstudio/shiny
cytofkit : https://github.com/JinmiaoChenLab/cytofkit
https://bioconductor.riken.jp/packages/3.3/bioc/html/cytofkit.html
https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005112&type=printable
Below, I provide the errors and warnings that I faced for 2 weeks for both
R versions;
*Please find the errors and warnings below;*
*CYTOFKIT FOR R VERSION 3.5.**2*
> library(cytofkit)
Loading required package: ggplot2
Loading required package: plyr
Error: package or namespace load failed for ?cytofkit?:
package ?cytofkit? was installed by an R version with different internals;
it needs to be reinstalled for use with this R version
ERROR: this R is version 3.5.2, package 'cytofkit2' requires R >=
4.0.0
In R CMD INSTALL
Installation paths not writeable, unable to update packages
path: C:/Program Files/R/R-3.5.2/library
packages:
boot, class, cluster, codetools, KernSmooth, Matrix, nlme, nnet, rpart,
spatial, survival
There were 23 warnings (use warnings() to see them)
> warnings()
Warning messages:
1: packages ?caTools?, ?umap? are not available (for R version 3.5.2)
2: In i.p(...) : installation of package ?DEoptimR? had non-zero exit status
3: In i.p(...) : installation of package ?mvtnorm? had non-zero exit status
4: In i.p(...) : installation of package ?XML? had non-zero exit status
5: In i.p(...) : installation of package ?fastmap? had non-zero exit status
6: In i.p(...) : installation of package ?sass? had non-zero exit status
7: In i.p(...) : installation of package ?jquerylib? had non-zero exit
status
8: In i.p(...) : installation of package ?later? had non-zero exit status
9: In i.p(...) : installation of package ?fontawesome? had non-zero exit
status
10: In i.p(...) : installation of package ?miniUI? had non-zero exit status
11: In i.p(...) : installation of package ?RcppTOML? had non-zero exit
status
12: In i.p(...) : installation of package ?pcaPP? had non-zero exit status
13: In i.p(...) : installation of package ?robustbase? had non-zero exit
status
14: In i.p(...) : installation of package ?cachem? had non-zero exit status
15: In i.p(...) : installation of package ?promises? had non-zero exit
status
16: In i.p(...) : installation of package ?reticulate? had non-zero exit
status
17: In i.p(...) : installation of package ?rrcov? had non-zero exit status
18: In i.p(...) : installation of package ?memoise? had non-zero exit status
19: In i.p(...) : installation of package ?httpuv? had non-zero exit status
20: In i.p(...) : installation of package ?bslib? had non-zero exit status
21: In i.p(...) : installation of package ?rmarkdown? had non-zero exit
status
22: In i.p(...) : installation of package ?htmlwidgets? had non-zero exit
status
23: In i.p(...) :
installation of package
?C:/Users/murat-delman/AppData/Local/Temp/Rtmp8GGq71/file4d0c54c135b4/cytofkit2_0.99.80.tar.gz?
had non-zero exit status
> devtools::install_github("JinmiaoChenLab/cytofkit")
Error in rbind(info, getNamespaceInfo(env, "S3methods")) :
number of columns of matrices must match (see arg 2)
>
*INSTALLING GGPLOT2 FOR R VERSION 3.5.**0*
> library(cytofkit)
Loading required package: ggplot2
Warning: namespace ?cli? is not available and has been replaced
by .GlobalEnv when processing object ?.Random.seed?
Error: package or namespace load failed for ?ggplot2? in rbind(info,
getNamespaceInfo(env, "S3methods")):
number of columns of matrices must match (see arg 2)
Error: package ?ggplot2? could not be loaded
In addition: Warning message:
package ?ggplot2? was built under R version 4.2.3
> library(cytofkit)
Error: package ?ggplot2? required by ?cytofkit? could not be found
> install.packages("D:/Programlar/ggplotgui_1.0.0.zip", repos =
NULL, type
= "win.binary")
Installing package into ?C:/Users/murat/Documents/R/win-library/3.5?
(as ?lib? is unspecified)
package ?ggplotgui? successfully unpacked and MD5 sums checked
> install.packages("D:/Programlar/ggplot2/ggplot2_3.0.0.tar.gz",
repos NULL, type = "source")
Installing package into ?C:/Users/murat/Documents/R/win-library/3.5?
(as ?lib? is unspecified)
* installing *source* package 'ggplot2' ...
** package 'ggplot2' successfully unpacked and MD5 sums checked
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Warning: namespace 'cli' is not available and has been replaced
by .GlobalEnv when processing object 'txhousing'
Error in rbind(info, getNamespaceInfo(env, "S3methods")) :
number of columns of matrices must match (see arg 2)
ERROR: lazy loading failed for package 'ggplot2'
* removing 'C:/Users/murat/Documents/R/win-library/3.5/ggplot2'
In R CMD INSTALL
Warning in install.packages :
installation of package ?D:/Programlar/ggplot2/ggplot2_3.0.0.tar.gz? had
non-zero exit status
> packageurl <- "
https://cran.r-project.org/src/contrib/Archive/ggplot2/ggplot2_3.3.0.tar.gz"
> install.packages(packageurl, repos=NULL, type="source")
Installing package into ?C:/Users/murat/Documents/R/win-library/3.5?
(as ?lib? is unspecified)
trying URL '
https://cran.r-project.org/src/contrib/Archive/ggplot2/ggplot2_3.3.0.tar.gz'
Content type 'application/x-gzip' length 3031461 bytes (2.9 MB)
downloaded 2.9 MB
* installing *source* package 'ggplot2' ...
** package 'ggplot2' successfully unpacked and MD5 sums checked
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Warning: namespace 'cli' is not available and has been replaced
by .GlobalEnv when processing object 'txhousing'
Error in rbind(info, getNamespaceInfo(env, "S3methods")) :
number of columns of matrices must match (see arg 2)
ERROR: lazy loading failed for package 'ggplot2'
* removing 'C:/Users/murat/Documents/R/win-library/3.5/ggplot2'
In R CMD INSTALL
Warning in install.packages :
installation of package
?C:/Users/murat/AppData/Local/Temp/RtmpI776iL/downloaded_packages/ggplot2_3.3.0.tar.gz?
had non-zero exit status
> install.packages("ggplot2")
Installing package into ?C:/Users/murat/Documents/R/win-library/3.5?
(as ?lib? is unspecified)
Warning in install.packages :
unable to access index for repository
https://cran.rstudio.com/bin/windows/contrib/3.5:
cannot open URL 'https://cran.rstudio.com/bin/windows/contrib/3.5/PACKAGES
'
installing the source package ?ggplot2?
trying URL 'https://cran.rstudio.com/src/contrib/ggplot2_3.4.2.tar.gz'
Content type 'application/x-gzip' length 3153811 bytes (3.0 MB)
downloaded 3.0 MB
* installing *source* package 'ggplot2' ...
** package 'ggplot2' successfully unpacked and MD5 sums checked
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Warning: namespace 'cli' is not available and has been replaced
by .GlobalEnv when processing object 'txhousing'
Error in rbind(info, getNamespaceInfo(env, "S3methods")) :
number of columns of matrices must match (see arg 2)
ERROR: lazy loading failed for package 'ggplot2'
* removing 'C:/Users/murat/Documents/R/win-library/3.5/ggplot2'
In R CMD INSTALL
Warning in install.packages :
installation of package ?ggplot2? had non-zero exit status
The downloaded source packages are in
?C:\Users\murat\AppData\Local\Temp\RtmpI776iL\downloaded_packages?
> packageurl <-
"https://cran.r-project.org/web/packages/ggplot2/index.html"
> install.packages(packageurl, repos=NULL, type="source")
Installing package into ?C:/Users/murat/Documents/R/win-library/3.5?
(as ?lib? is unspecified)
trying URL 'https://cran.r-project.org/web/packages/ggplot2/index.html'
Content type 'text/html' length 468435 bytes (457 KB)
downloaded 457 KB
Error in getOctD(x, offset, len) : invalid octal digit
In R CMD INSTALL
Warning in install.packages :
installation of package
?C:/Users/murat/AppData/Local/Temp/RtmpI776iL/downloaded_packages/index.html?
had non-zero exit status
> packageurl <- "
https://cran.r-project.org/src/contrib/Archive/ggplot2/ggplot2_3.3.0.tar.gz"
> install.packages(packageurl, repos=NULL, type="source")
Installing package into ?C:/Users/murat/Documents/R/win-library/3.5?
(as ?lib? is unspecified)
trying URL '
https://cran.r-project.org/src/contrib/Archive/ggplot2/ggplot2_3.3.0.tar.gz'
Content type 'application/x-gzip' length 3031461 bytes (2.9 MB)
downloaded 2.9 MB
* installing *source* package 'ggplot2' ...
** package 'ggplot2' successfully unpacked and MD5 sums checked
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Warning: namespace 'cli' is not available and has been replaced
by .GlobalEnv when processing object 'txhousing'
Error in rbind(info, getNamespaceInfo(env, "S3methods")) :
number of columns of matrices must match (see arg 2)
ERROR: lazy loading failed for package 'ggplot2'
* removing 'C:/Users/murat/Documents/R/win-library/3.5/ggplot2'
In R CMD INSTALL
Warning in install.packages :
installation of package
?C:/Users/murat/AppData/Local/Temp/Rtmp8sLmoj/downloaded_packages/ggplot2_3.3.0.tar.gz?
had non-zero exit status
> pak::pkg_install("tibble")
Error in load_private_package("cli") :
Cannot load cli from the private library
> pak::pkg_install("tidyverse/tibble")
Error in load_private_package("cli") :
Cannot load cli from the private library
> pkg_install("tibble")
Error in pkg_install("tibble") : could not find function
"pkg_install"
> install.packages("D:/Programlar/ggplot2/ggplot2_3.4.2.zip", repos
= NULL,
type = "win.binary")
Installing package into ?C:/Users/murat/Documents/R/win-library/3.5?
(as ?lib? is unspecified)
package ?ggplot2? successfully unpacked and MD5 sums checked
Kind Regards
Murat Delman, Ph.D.
Izmir Institute of Technology
Integrated Research Centers
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08/04/23,
10:12:50 AM
Eric Berger
2023-Aug-04 18:09 UTC
[R] Technical Help Request for "Version Differences" (i.e., CYTOFKIT package)
Hi Murat, I am not sure why you are using R 3.5. CRAN has R 4.3.1 https://cran.r-project.org/bin/windows/base/ I suggest you start over and install R 4.3.1 and then your cytofkit install might work. Good luck, Eric On Fri, Aug 4, 2023 at 5:47?PM Murat DELMAN <murat.delman at gmail.com> wrote:> > Dear Ms./Mr., > > > I sent an email to this email address from my institutional address > muratdelman at iyte.edu.tr, but could not make sure if my email reached you > because sometimes emails are not delivered to the target due to > server issues and country-related limitations. I wanted to send you the > same email via my Gmail account. > > > > > If the email text and codes below are not properly displayed, you can > download the attached Word file, which has exactly the same content. > > > > I am a cytometrist and microscopist at Izmir Institute of Technology, > Integrated Research Center. I operate a cytometer and fluorescence > microscope to acquire data from our researchers? samples and then give them > analyzed data. I need to dive into bulk data to present all of the > information in the sample. To do this, I have recently been trying to > develop my skills in R, RStudio, and Cytofkit package for cytometry (flow, > spectral, mass, imaging mass cytometry) data analysis. I am new in this > area and must learn R for data analysis. > > > > > > May I request help from you or one of your assistants who is competent in > R, RStudio, and R packages with the installation issues caused by ?*version > differences*? between R itself, R packages, and their dependencies? I > really had to send this email to you anymore, because I could not run the > package ?Cytofkit? and find a solution on the internet. > > > It has been nearly 2 weeks since I have been trying to solve the errors and > warnings. I am in a vicious circle and cannot move forward anymore. This is > why I needed help from an expert competent in R programming. > > > > I tried to use the renv package, but I could not move forward because I am > not competent in R. > > > I explained the errors that I faced during the installation below. > > > > I have two computers, both operating Windows 10, 64-bit. > > > > I installed R 3.5.*2* on the desktop (Windows in English) and R 3.5.*0* on > the laptop (Windows in Turkish). > > > > I know that you are very busy with your work, but may you (or your > assistant) help me by informing me *how to install consistent versions of > R, RStudio, and packages/dependencies* (for example, Cytofkit, ggplot2, > Rtools, devtools, plyr, shiny, GUI)? > > > > I guess I will need exact web page links "*in* *an orderly manner" to > download* the correct versions of everything. > > > > I would appreciate it if you could advise me or forward this email to one > of your assistants or experts. > > > > > I really appreciate any help you can provide. > > > > > Kind Regards > > > > > *Please find the technical details below;* > > > > > > I used the installation order listed below; > > > > I downloaded R 3.5.0 and R 3.5.2 using the link and directory below. > > > > Link: https://www.freestatistics.org/cran/ > > > > Directory: Download R for Windows > install R for the first time > Previous > releases > R 3.5.2 (December, 2018) or R 3.5.0 > > > > I downloaded RStudio from the link below; > > > > https://posit.co/download/rstudio-desktop/ > > > > > I downloaded packages via either > https://cran.rstudio.com/bin/windows/contrib/r-devel/ or the ?install > function? tab in RStudio. > > > > Rtools : https://cran.r-project.org/bin/windows/Rtools/ > > > > Devtools : https://cran.r-project.org/web/packages/devtools/index.html > > > > ggplot2 : https://cran.r-project.org/web/packages/ggplot2/index.html > > > > https://ggplot2.tidyverse.org/ > > > > https://cran.r-project.org/web/packages/ggplot2/ggplot2.pdf > > > > > > plyr : https://cran.r-project.org/web/packages/plyr/index.html > > > > shiny : https://cran.r-project.org/web/packages/shiny/index.html > > > > > https://shiny.posit.co/r/getstarted/shiny-basics/lesson1/index.html > > > > https://github.com/rstudio/shiny > > > > cytofkit : https://github.com/JinmiaoChenLab/cytofkit > > > > > https://bioconductor.riken.jp/packages/3.3/bioc/html/cytofkit.html > > > > https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005112&type=printable > > > > > Below, I provide the errors and warnings that I faced for 2 weeks for both > R versions; > > > > > > *Please find the errors and warnings below;* > > > > > *CYTOFKIT FOR R VERSION 3.5.**2* > > > > > > > library(cytofkit) > > Loading required package: ggplot2 > > Loading required package: plyr > > Error: package or namespace load failed for ?cytofkit?: > > package ?cytofkit? was installed by an R version with different internals; > it needs to be reinstalled for use with this R version > > ERROR: this R is version 3.5.2, package 'cytofkit2' requires R >= 4.0.0 > > In R CMD INSTALL > > Installation paths not writeable, unable to update packages > > path: C:/Program Files/R/R-3.5.2/library > > packages: > > boot, class, cluster, codetools, KernSmooth, Matrix, nlme, nnet, rpart, > spatial, survival > > There were 23 warnings (use warnings() to see them) > > > > > warnings() > > Warning messages: > > 1: packages ?caTools?, ?umap? are not available (for R version 3.5.2) > > 2: In i.p(...) : installation of package ?DEoptimR? had non-zero exit status > > 3: In i.p(...) : installation of package ?mvtnorm? had non-zero exit status > > 4: In i.p(...) : installation of package ?XML? had non-zero exit status > > 5: In i.p(...) : installation of package ?fastmap? had non-zero exit status > > 6: In i.p(...) : installation of package ?sass? had non-zero exit status > > 7: In i.p(...) : installation of package ?jquerylib? had non-zero exit > status > > 8: In i.p(...) : installation of package ?later? had non-zero exit status > > 9: In i.p(...) : installation of package ?fontawesome? had non-zero exit > status > > 10: In i.p(...) : installation of package ?miniUI? had non-zero exit status > > 11: In i.p(...) : installation of package ?RcppTOML? had non-zero exit > status > > 12: In i.p(...) : installation of package ?pcaPP? had non-zero exit status > > 13: In i.p(...) : installation of package ?robustbase? had non-zero exit > status > > 14: In i.p(...) : installation of package ?cachem? had non-zero exit status > > 15: In i.p(...) : installation of package ?promises? had non-zero exit > status > > 16: In i.p(...) : installation of package ?reticulate? had non-zero exit > status > > 17: In i.p(...) : installation of package ?rrcov? had non-zero exit status > > 18: In i.p(...) : installation of package ?memoise? had non-zero exit status > > 19: In i.p(...) : installation of package ?httpuv? had non-zero exit status > > 20: In i.p(...) : installation of package ?bslib? had non-zero exit status > > 21: In i.p(...) : installation of package ?rmarkdown? had non-zero exit > status > > 22: In i.p(...) : installation of package ?htmlwidgets? had non-zero exit > status > > 23: In i.p(...) : > > installation of package > ?C:/Users/murat-delman/AppData/Local/Temp/Rtmp8GGq71/file4d0c54c135b4/cytofkit2_0.99.80.tar.gz? > had non-zero exit status > > > devtools::install_github("JinmiaoChenLab/cytofkit") > > Error in rbind(info, getNamespaceInfo(env, "S3methods")) : > > number of columns of matrices must match (see arg 2) > > > > > > > > > > > *INSTALLING GGPLOT2 FOR R VERSION 3.5.**0* > > > > > library(cytofkit) > > Loading required package: ggplot2 > > Warning: namespace ?cli? is not available and has been replaced > > by .GlobalEnv when processing object ?.Random.seed? > > Error: package or namespace load failed for ?ggplot2? in rbind(info, > getNamespaceInfo(env, "S3methods")): > > number of columns of matrices must match (see arg 2) > > Error: package ?ggplot2? could not be loaded > > In addition: Warning message: > > package ?ggplot2? was built under R version 4.2.3 > > > > > library(cytofkit) > > Error: package ?ggplot2? required by ?cytofkit? could not be found > > > > > install.packages("D:/Programlar/ggplotgui_1.0.0.zip", repos = NULL, type > = "win.binary") > > Installing package into ?C:/Users/murat/Documents/R/win-library/3.5? > > (as ?lib? is unspecified) > > package ?ggplotgui? successfully unpacked and MD5 sums checked > > > > > install.packages("D:/Programlar/ggplot2/ggplot2_3.0.0.tar.gz", repos > NULL, type = "source") > > Installing package into ?C:/Users/murat/Documents/R/win-library/3.5? > > (as ?lib? is unspecified) > > * installing *source* package 'ggplot2' ... > > ** package 'ggplot2' successfully unpacked and MD5 sums checked > > ** R > > ** data > > *** moving datasets to lazyload DB > > ** inst > > ** byte-compile and prepare package for lazy loading > > Warning: namespace 'cli' is not available and has been replaced > > by .GlobalEnv when processing object 'txhousing' > > Error in rbind(info, getNamespaceInfo(env, "S3methods")) : > > number of columns of matrices must match (see arg 2) > > ERROR: lazy loading failed for package 'ggplot2' > > * removing 'C:/Users/murat/Documents/R/win-library/3.5/ggplot2' > > In R CMD INSTALL > > Warning in install.packages : > > installation of package ?D:/Programlar/ggplot2/ggplot2_3.0.0.tar.gz? had > non-zero exit status > > > > > packageurl <- " > https://cran.r-project.org/src/contrib/Archive/ggplot2/ggplot2_3.3.0.tar.gz" > > > install.packages(packageurl, repos=NULL, type="source") > > Installing package into ?C:/Users/murat/Documents/R/win-library/3.5? > > (as ?lib? is unspecified) > > trying URL ' > https://cran.r-project.org/src/contrib/Archive/ggplot2/ggplot2_3.3.0.tar.gz' > > Content type 'application/x-gzip' length 3031461 bytes (2.9 MB) > > downloaded 2.9 MB > > > > * installing *source* package 'ggplot2' ... > > ** package 'ggplot2' successfully unpacked and MD5 sums checked > > ** R > > ** data > > *** moving datasets to lazyload DB > > ** inst > > ** byte-compile and prepare package for lazy loading > > Warning: namespace 'cli' is not available and has been replaced > > by .GlobalEnv when processing object 'txhousing' > > Error in rbind(info, getNamespaceInfo(env, "S3methods")) : > > number of columns of matrices must match (see arg 2) > > ERROR: lazy loading failed for package 'ggplot2' > > * removing 'C:/Users/murat/Documents/R/win-library/3.5/ggplot2' > > In R CMD INSTALL > > Warning in install.packages : > > installation of package > ?C:/Users/murat/AppData/Local/Temp/RtmpI776iL/downloaded_packages/ggplot2_3.3.0.tar.gz? > had non-zero exit status > > > > > install.packages("ggplot2") > > Installing package into ?C:/Users/murat/Documents/R/win-library/3.5? > > (as ?lib? is unspecified) > > Warning in install.packages : > > unable to access index for repository > https://cran.rstudio.com/bin/windows/contrib/3.5: > > cannot open URL 'https://cran.rstudio.com/bin/windows/contrib/3.5/PACKAGES > ' > > installing the source package ?ggplot2? > > > > trying URL 'https://cran.rstudio.com/src/contrib/ggplot2_3.4.2.tar.gz' > > Content type 'application/x-gzip' length 3153811 bytes (3.0 MB) > > downloaded 3.0 MB > > > > * installing *source* package 'ggplot2' ... > > ** package 'ggplot2' successfully unpacked and MD5 sums checked > > ** R > > ** data > > *** moving datasets to lazyload DB > > ** inst > > ** byte-compile and prepare package for lazy loading > > Warning: namespace 'cli' is not available and has been replaced > > by .GlobalEnv when processing object 'txhousing' > > Error in rbind(info, getNamespaceInfo(env, "S3methods")) : > > number of columns of matrices must match (see arg 2) > > ERROR: lazy loading failed for package 'ggplot2' > > * removing 'C:/Users/murat/Documents/R/win-library/3.5/ggplot2' > > In R CMD INSTALL > > Warning in install.packages : > > installation of package ?ggplot2? had non-zero exit status > > > > The downloaded source packages are in > > ?C:\Users\murat\AppData\Local\Temp\RtmpI776iL\downloaded_packages? > > > > > packageurl <- "https://cran.r-project.org/web/packages/ggplot2/index.html" > > > install.packages(packageurl, repos=NULL, type="source") > > Installing package into ?C:/Users/murat/Documents/R/win-library/3.5? > > (as ?lib? is unspecified) > > trying URL 'https://cran.r-project.org/web/packages/ggplot2/index.html' > > Content type 'text/html' length 468435 bytes (457 KB) > > downloaded 457 KB > > > > Error in getOctD(x, offset, len) : invalid octal digit > > In R CMD INSTALL > > Warning in install.packages : > > installation of package > ?C:/Users/murat/AppData/Local/Temp/RtmpI776iL/downloaded_packages/index.html? > had non-zero exit status > > > > > packageurl <- " > https://cran.r-project.org/src/contrib/Archive/ggplot2/ggplot2_3.3.0.tar.gz" > > > install.packages(packageurl, repos=NULL, type="source") > > Installing package into ?C:/Users/murat/Documents/R/win-library/3.5? > > (as ?lib? is unspecified) > > trying URL ' > https://cran.r-project.org/src/contrib/Archive/ggplot2/ggplot2_3.3.0.tar.gz' > > Content type 'application/x-gzip' length 3031461 bytes (2.9 MB) > > downloaded 2.9 MB > > > > * installing *source* package 'ggplot2' ... > > ** package 'ggplot2' successfully unpacked and MD5 sums checked > > ** R > > ** data > > *** moving datasets to lazyload DB > > ** inst > > ** byte-compile and prepare package for lazy loading > > Warning: namespace 'cli' is not available and has been replaced > > by .GlobalEnv when processing object 'txhousing' > > Error in rbind(info, getNamespaceInfo(env, "S3methods")) : > > number of columns of matrices must match (see arg 2) > > ERROR: lazy loading failed for package 'ggplot2' > > * removing 'C:/Users/murat/Documents/R/win-library/3.5/ggplot2' > > In R CMD INSTALL > > Warning in install.packages : > > installation of package > ?C:/Users/murat/AppData/Local/Temp/Rtmp8sLmoj/downloaded_packages/ggplot2_3.3.0.tar.gz? > had non-zero exit status > > > > > pak::pkg_install("tibble") > > Error in load_private_package("cli") : > > Cannot load cli from the private library > > > > > pak::pkg_install("tidyverse/tibble") > > Error in load_private_package("cli") : > > Cannot load cli from the private library > > > > > pkg_install("tibble") > > Error in pkg_install("tibble") : could not find function "pkg_install" > > > > > install.packages("D:/Programlar/ggplot2/ggplot2_3.4.2.zip", repos = NULL, > type = "win.binary") > > Installing package into ?C:/Users/murat/Documents/R/win-library/3.5? > > (as ?lib? is unspecified) > > package ?ggplot2? successfully unpacked and MD5 sums checked > > > > Kind Regards > > > Murat Delman, Ph.D. > Izmir Institute of Technology > Integrated Research Centers > > [image: Mailtrack] > <https://mailtrack.io?utm_source=gmail&utm_medium=signature&utm_campaign=signaturevirality11&> > Sender > notified by > Mailtrack > <https://mailtrack.io?utm_source=gmail&utm_medium=signature&utm_campaign=signaturevirality11&> > 08/04/23, > 10:12:50 AM > ______________________________________________ > R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code.