I run into this error ("package XXX is not available for R version X.X.X") when trying to install pkgdown in my RStudio on my company's HPC. It allows loading package from given directory: Thanks for contributing an answer to Stack Overflow! Please clarify. Staging Ground Beta 1 Recap, and Reviewers needed for Beta 2, Unable to install packages in latest version of RStudio and R Version.3.1.1, package pbkrtest is not available (for R version 3.2.2), R packages rgdal / rgeos "is not available (for R version 3.1.1)". package syncwave/mvcwt is not available (for R version 3.0.2), package diamonds is not available (for R version 3.0.0). Differential expression analysis of RNA-seq expression profiles with biological replication. At first I had about 10 errors regarding packages I couldnt install. Unfortunately I'm not able to install "edgeR", I've looking for any possible solution but i hasn't success, I would be really thankful for any kind of help. package doMC NOT available for R version 3.0.0 warning in install.packages Staging Ground Beta 1 Recap, and Reviewers needed for Beta 2, R: Installation of several packages had non-zero exit status, Installation of package forecast had non-zero exit status. 2 Answers Sorted by: 1 Bioconductor is a package management tool for R that allows you to install the appropriate package versions for your R version. That shouldn't be necessary, but the error message could narrow down the possibilities. Is the plyr package for R not available for R version 3.0.2? There is a package TSA from CRAN. From searching I managed to install RCurl but I still get the bellow error. How to view hierarchical package structure in Eclipse package explorer, How to unload a package without restarting R. How to find out which package version is loaded in R? Why does it seem like I am losing IP addresses after subnetting with the subnet mask of 255.255.255.192/26? when I try to install the package , it returns a message like this: Warning message: Not the answer you're looking for? I can not seem to figure out how to install the package in R. I have tried the codes you suggested: https://stackoverflow.com/questions/1474081/how-do-i-install-an-r-package-from-source. I did install.packages('path/to/source/code/of/foobarbaz', type='source', repos=NULL) which worked for me in this occasion. If you want to install it: If you already have .tar.gz files. Please read the posting But it still does not work. Warning this is not exactly best practice. It may have a repository on GitHub/Bitbucket/Gitorious. (or I wonder if its because I installed R via Homebrew? EnhancedVolcano dependency proj4 failed to install in R 4.1 ```In .inet_warning (msg) : package 'proj4 ' is not available for Bioconductor version '3.13' # include your problematic code here with any corresponding output # please also include the results of running the following in an R session . Making statements based on opinion; back them up with references or personal experience. Perhaps you should add the directory containing `fribidi.pc. Is the plyr package for R not available for R version 3.0.2? If so, how close was it? The nature of simulating nature: A Q&A with IBM Quantum researcher Dr. Jamie We've added a "Necessary cookies only" option to the cookie consent popup. Choosing "no" made a difference. Asking for help, clarification, or responding to other answers. It almost always works for me when I use bioconductor as source and then invoke biocLite. I got "package is not available" For Ubuntu 20.04 LTS with R 4.1 use commands below to install needed build-dependencies: Thanks for contributing an answer to Ask Ubuntu! Ubuntu and the circle of friends logo are trade marks of Canonical Limited and are used under licence. The workaround is to set repository manually: This solution might break R but here is an easiest solution that works 99% of time. Relation between transaction data and transaction id. Package fribidi was not found in the pkg-config search path. If it's just one package, maybe just use install.packages("package name", repos = "a newer CRAN than your company's archaic CRAN snapshot"). Staging Ground Beta 1 Recap, and Reviewers needed for Beta 2. How to import local packages without gopath. Why does it seem like I am losing IP addresses after subnetting with the subnet mask of 255.255.255.192/26? How to handle a hobby that makes income in US. rev2023.3.3.43278. Use of this site constitutes acceptance of our User Agreement and Privacy Running the command sudo dpkg-query -l | grep libcairo2-dev also shows that the Cairo package is fully installed. For example, I needed to install 7 packages(Sejong, hash, rJava, tau, RSQLite, devtools, stringr) to install KoNLP package. Is it possible to rotate a window 90 degrees if it has the same length and width? I have tried to install Cairo using the command sudo apt-get install libcairo2-dev but I still get the same error. Making statements based on opinion; back them up with references or personal experience. ), 9. Is the bigvis package for R not available for R version 3.0.1? EconomiCurtis closed This topic has been closed. --> install_logs_.md. I am trying to install DESeq2 and I keep getting errors. Edit (04/08/2020): I recently had an issue with a package (XML) reportedly not available for my R version (3.6.3, latest supported on Debian stretch), after an update of the package in CRAN. I am trying to install DESeq2 and I keep getting errors. Done Building dependency tree Reading state information. Powered by Discourse, best viewed with JavaScript enabled, Problems with tidyverse load - Error: package or namespace load failed for tidyverse in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]): namespace scales 0.4.0 is already loaded, but >= 0.4.1 is required, ERROR: dependency rlang is not available for package dbplyr - R 3.4.3, removing 'C:/Users/dimarcantonio/Documents/R/win-library/3.2/dbplyr', removing 'C:/Users/dimarcantonio/Documents/R/win-library/3.2/hms', removing 'C:/Users/dimarcantonio/Documents/R/win-library/3.2/tidyverse'. Already on GitHub? Well occasionally send you account related emails. The problem was not the version of R, it was the repos parameter. Installing package into C:/Users/dimarcantonio/Documents/R/win-library/3.2 You can select a different mirror with chooseCRANmirror () and try the installation again. How should I deal with "package 'xxx' is not available (for R version x.y.z)" warning? install.packages("rlang") It appears to be a bug in r-studio however. Can I tell police to wait and call a lawyer when served with a search warrant? Equivalently for Bioconductor packages, you may need to update your Bioconductor installation. Restart RStudio and then re-install the main package allowing for it to run through the updates on the dependencies. --N Using Kolmogorov complexity to measure difficulty of problems? It was very unexpected because I already had installed it with success before (on the same version of R and same OS). Assuming that it is reasonably compliant with CRAN standards, you can still download it using install.packages; you just have to specify the repository URL. I tried to install pkgdown via devtools fresh on a new OS X (Catalina) machine, but the installation seems to fail (non-zero exit status) with error implications for packages such as freetype2 and systemfonts, even with dependencies set: The text was updated successfully, but these errors were encountered: The error message from {systemfonts} suggests that you need to install the freetype2 library on your machine: If you don't have homebrew, I would suggest to install it (https://brew.sh/) and then run brew install freetype from your terminal. Using Kolmogorov complexity to measure difficulty of problems? Is there a single-word adjective for "having exceptionally strong moral principles"? I'm having the same error when building my library's documentation with Github Actions (check here). package RTN is not available (for R version 3.0.1) Recovering from a blunder I made while emailing a professor. same issue today with renv::install("pkgdown") and install.packages("pkgdown") persisted after conda install -c anaconda fribidi. Below are the commands I have run and the respective outputs: To verify the proper installation of Cairo: You are probably do not want to read the messages which are shown during compilation. In the R 3.2.3 (new in 2016) there was a bug, preventing it some times from finding correct package. Bulk update symbol size units from mm to map units in rule-based symbology. providing code, data, or documentation. It only takes a minute to sign up. So, maybe try updating your operating system? The first thing to test is have you spelled the name of the package correctly? The package is not in the repositories you selected. Recovering from a blunder I made while emailing a professor, How to tell which packages are held back due to phased updates. Sign up for a free GitHub account to open an issue and contact its maintainers and the community. How can I use it? I have had the same problem on Mac (R version 3.2.2) and Ubuntu (R version 3.0.2) and in both instances it was resolved simply by running this before the install.packages command. DESeq2 installation Error (ERROR: dependency locfit is not available for package DESeq2), Traffic: 186 users visited in the last hour, User Agreement and Privacy when I try to install the package , it returns a message like this: Warning message: In .inet_warning(msg) : package 'ImpulseDE2' is not available for Bioconductor version '3.14' A version of this package for y. hello, thanks for helping! What is the purpose of non-series Shimano components? Not the answer you're looking for? (Fresh Ubuntu 20.04 LTS Setup). Why doesn't R think that the package is available? Did this satellite streak past the Hubble Space Telescope so close that it was out of focus? In RStudio, go to the "Packages" tab and remove all the packages (click on the x) raising the "red-flags" in the required updates. Have a question about this project? Warning message: package (s) not installed when version (s) same as current; use `force = TRUE` to re-install: 'limma' Please help and let me know to find solution. "After the incident", I started to be more careful not to trip over things. To learn more, see our tips on writing great answers. Connect and share knowledge within a single location that is structured and easy to search. Implements a range of statistical methodology based on the negative binomial distributions, including empirical Bayes estimation, exact tests, generalized linear models and quasi-likelihood tests. Are there tables of wastage rates for different fruit and veg? Will Gnome 43 be included in the upgrades of 22.04 Jammy? To view documentation for the version of this package installed Why are Suriname, Belize, and Guinea-Bissau classified as "Small Island Developing States"? to your account. Connect and share knowledge within a single location that is structured and easy to search. Asking for help, clarification, or responding to other answers. I got "package is not available", package dataset is not available (for R version 3.1.1), "package rhipe is not available (for R version 3.1.2)", https://cran.r-project.org/src/contrib/Archive/, cran.r-project.org/bin/linux/ubuntu/README, https://support.rstudio.com/hc/en-us/articles/200488488-Configuring-R-to-Use-an-HTTP-or-HTTPS-Proxy, How Intuit democratizes AI development across teams through reusability. The solution was to find the URL of the compatible version and force install.packages to use it, as follows: This saved me a lot of time debugging what's wrong. Is there a single-word adjective for "having exceptionally strong moral principles"? Hello everybody! privacy statement. set n=N-1; Is it possible to rotate a window 90 degrees if it has the same length and width? Done libcairo2-dev is already the newest version (1.16.0-4ubuntu1). Will Gnome 43 be included in the upgrades of 22.04 Jammy? Asking for help, clarification, or responding to other answers. For context, this afternoon I had version 5.2.1, received similar errors and decided to upgrade. rev2023.3.3.43278. From searching I managed to install RCurl but I still get the bellow error. I have ran into this issue with other packages. If you have a query related to it or one of the replies, start a new topic and refer back with a link. RETURN ( Version: 1.5-9.7: Depends: R ( 4.1.0) . You can select a different mirror with chooseCRANmirror() and try the installation again. To verify the proper installation of Cairo: The packages include: broom, tidyr, tidyselect, vctrs, and rlang. Turns out, the CRAN snapshot they have on the HPC is from Jan. 2018 (almost 2 years old) and indeed pkgdown did not exist then. You signed in with another tab or window. Reverse dependencies: Reverse depends: abc, antiProfiles, bumphunter, . OOOh really! Maybe my work network somehow blocks these types of requests - I have to do something similar with Python and PIP. A library is a place (directory) where R knows to find packages it can use, It may have a dependency on a more recent version of R (or one of the packages that it imports/depends upon does). To see which repositories R will look in for your package, and optionally select some additional ones. Otherwise, you will need to set up Rtools in order to install from source. Q&A for work. Policy. I changed the Action file to run install.packages("pkgdown") instead of remotes::install_dev("pkgdown") as I needed the site to be updated today. For the Nozomi from Shinagawa to Osaka, say on a Saturday afternoon, would tickets/seats typically be available - or would you need to book? 'getOption("repos")' replaces Bioconductor standard repositories, see I am trying to install DESeq2 and I keep getting errors. Does this help you https://stackoverflow.com/questions/1474081/how-do-i-install-an-r-package-from-source? may need compilation of C/C++/Fortran: rlang A package is a standardized collection of material extending R, e.g. For the Nozomi from Shinagawa to Osaka, say on a Saturday afternoon, would tickets/seats typically be available - or would you need to book? Install the package devtools if you don't have it (it includes package remotes) and then install the specific version that will work in your current R. You can look up that information on the CRAN page for the specific package archives. Can Martian regolith be easily melted with microwaves? I know that may sound ridiculous given that your R version is only a couple of years old, but I don't make the rules. Trouble Installing geoR package By clicking Post Your Answer, you agree to our terms of service, privacy policy and cookie policy. Sign in 3. try this install_github("YosefLab/ImpulseDE2"). 1 Answer Sorted by: 0 There is a package TSA from CRAN. That's a bug I reported already a few times, but I don't know if it's sorted already. https://cran.r-project.org/web/packages/locfit/index.html. Install from local (i.e. 10. package diamonds is not available (for R version 3.0.0) Why is there a voltage on my HDMI and coaxial cables? Your package is in a non-standard repository (e.g. Warning message: package 'GenomeInfoDbData' is not available (as a binary package for R version 4.0.2) price793 November 24, 2020, 9:43pm #6 Hi Tulip, I figured out the problem. As mentioned here (in French), this can happen when you have two versions of R installed on your computer. The Cairo package also requires X11/Intrinsic.h from libxt-dev package. @Tmacphee13 @joycekang, installing on Linux, you need to install libharfbuzz using your Linux package distribution manager (e.g. ERROR: dependency 'rlang' is not available for package 'dbplyr'. Site design / logo 2023 Stack Exchange Inc; user contributions licensed under CC BY-SA. To learn more, see our tips on writing great answers. @JorisMeys It seems to me that all packages I tried to install so far were available via this method, but I'm mainly using R for bioinformatics. These will not be installed. You are using an older R version (3.6.3) for which not all packages are available. locfit: Local Regression, Likelihood and Density Estimation Local regression, likelihood and density estimation methods as described in the 1999 book by Loader. Additionally, some packages are available only via the sources for some or all platforms. In this case, you can load an old version of the package using install_version(). Browse other questions tagged. Look at. Connect and share knowledge within a single location that is structured and easy to search. privacy statement. BEGIN Cloning the repository woudnt do it either. AC Op-amp integrator with DC Gain Control in LTspice, Linear Algebra - Linear transformation question. Sometimes the package maintainer may show R version gaps that it does not support. Restart RStudio and then re-install the main package allowing for it to run through the updates on the dependencies. It is common to be confused about the difference between a package and a library, or a package and a dataset. What OS & release are you using? Browse other questions tagged, Where developers & technologists share private knowledge with coworkers, Reach developers & technologists worldwide. You didn't look in the right repository, Next, you should check to see if the package is available. These packages require the remotes package to install. That error simply tells you that broom is not installed. DESeq2 installation Error (ERROR: dependency 'locfit' is not available for package 'DESeq2') 0 tsomakiank 0 @93aec3aa Last seen 9 months ago Greece Hello everybody! Why do small African island nations perform better than African continental nations, considering democracy and human development? If the package requires compiling code (e.g. The main problem of that was that I couldnt install RCurl. In RStudio, go to the "Packages" tab and remove all the packages (click on the x) raising the "red-flags" in the required updates. I don't have any problem resorting to brew, but this does seem a bit off-track. Sign up for a free GitHub account to open an issue and contact its maintainers and the community. It worked fine for me. It seems that the latest locfit version requires R 4.1.0. Alternatively, the list of available packages can be seen in a browser for CRAN, CRAN (extras), Bioconductor, R-forge, RForge, and GitHub. OOOh really! Alternatively, you can quickly check to see if the package is available by testing against the row names. The package is on GitHub/Bitbucket/Gitorious. I've tried installing the following packages but have received the same error, "installation of package X had non-zero exit status". Did any DOS compatibility layers exist for any UNIX-like systems before DOS started to become outmoded? Why do small African island nations perform better than African continental nations, considering democracy and human development? Policy. Browse other questions tagged, Where developers & technologists share private knowledge with coworkers, Reach developers & technologists worldwide. Did not work for me in installing the package. Maybe I could have tried to update R using updateR(), but I'm afraid that doing so would interfere with my distribution's package manager. Did any DOS compatibility layers exist for any UNIX-like systems before DOS started to become outmoded? Disconnect between goals and daily tasksIs it me, or the industry? If so, how close was it? Sign up for a free GitHub account to open an issue and contact its maintainers and the community. It would appear that either versions 1.5-9.2 or 1.5-9.4 will be compatible with your R version, so maybe installing one of those ahead of DESeq2 will do the trick. You can do the same for https. By clicking Sign up for GitHub, you agree to our terms of service and That was meant to control the source of packages for layman users, but as a developer, you can in most cases change that by: If you know what you are doing and may need more than one package that might not be available in your system's CRAN, you can set this up in your project .Rprofile. This helped me installing a package on a server (i.e. Full text of the 'Sri Mahalakshmi Dhyanam & Stotram', Relation between transaction data and transaction id. What happens if you use install.packages("rlang")? Remove the offending line with your text editor e.g. The package is in a non-standard repository. package ggbiplot is not available (for R version 3.5.3)? You are using an older version of R that does not get updated package binaries for Windows. Hisat21.1 , SQLlimitoffset In this case the error message is slightly misleading: package 'foobarbaz' is not available (for R version x.y.z). Documentation: Reference manual: locfit.pdf Downloads: Reverse dependencies: Linking: Please use the canonical form https://CRAN.R-project.org/package=locfitto link to this page. Unfortunately, it seems that I'd have to replicate the process for other packages with non-zero status as well: I wonder if these interdependencies can be resolved within R? Package which is only available in source form, and I suggest using Hadley Wickham's devtoolspackage. How do I remove packages installed with Python's easy_install? For problems with Ubuntu, check the README: This solution worked for me for debian for the package, When I try install.packages('foobarbaz', repos=NULL) I get error " Error in install.packages("pair", repos = NULL) : type == "both" cannot be used with 'repos = NULL'", Thanks for the comment - I think I forgot to write the, This way do solved my problem, but still update my R to the newest version(from.
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